Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values
TMEM201	199953	broad.mit.edu	37	1	9661192	9661192	+	Silent	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:9661192C>T	uc001apz.2	+	5	648	c.636C>T	c.(634-636)GTC>GTT	p.V212V	TMEM201_uc001apy.2_Silent_p.V212V	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	212						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)		AGTCCCCGGTCCAGGTCATCC	0.657000												
UBR4	23352	broad.mit.edu	37	1	19513771	19513771	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:19513771C>A	uc001bbi.2	-	13	1523	c.1519G>T	c.(1519-1521)GCA>TCA	p.A507S		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	507					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)		CTCAAGGCTGCAGGGGGGCCA	0.478000												
SH2D5	400745	broad.mit.edu	37	1	21048371	21048371	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:21048371C>T	uc001bdt.1	-	9	1559	c.934G>A	c.(934-936)GAC>AAC	p.D312N	SH2D5_uc009vpy.1_Missense_Mutation_p.D396N|SH2D5_uc001bdu.1_RNA	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	312											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)		GGCCCACAGTCCTGCTCCTCG	0.687000												
PAPPA2	60676	broad.mit.edu	37	1	176659380	176659380	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr1:176659380A>G	uc001gkz.2	+	5	3409	c.2245A>G	c.(2245-2247)AGT>GGT	p.S749G	PAPPA2_uc001gky.1_Missense_Mutation_p.S749G|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	749	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						TAAAGGAGTCAGTGAAAGAGA	0.542000												
VPS11	55823	broad.mit.edu	37	11	118944008	118944008	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr11:118944008G>T	uc010ryx.1	+	7	1027	c.985G>T	c.(985-987)GAT>TAT	p.D329Y	VPS11_uc010ryy.1_Missense_Mutation_p.D175Y	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	329					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)		CGTCTTTGAGGATGTAGTGGA	0.532000												
ARID2	196528	broad.mit.edu	37	12	46245720	46245720	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr12:46245720C>T	uc001ros.1	+	15	3814	c.3814C>T	c.(3814-3816)CGA>TGA	p.R1272*	ARID2_uc001ror.2_Nonsense_Mutation_p.R1272*|ARID2_uc009zkg.1_Nonsense_Mutation_p.R728*|ARID2_uc009zkh.1_Nonsense_Mutation_p.R899*|ARID2_uc001rou.1_Nonsense_Mutation_p.R606*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1272					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)		CCCGTCCTGCCGACGAGGAGC	0.428000												
TEP1	7011	broad.mit.edu	37	14	20849537	20849537	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr14:20849537C>T	uc001vxe.2	-	32	4622	c.4582G>A	c.(4582-4584)GCT>ACT	p.A1528T	TEP1_uc010ahk.2_Missense_Mutation_p.A871T|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.A1420T|TEP1_uc010tlh.1_5'UTR	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1528					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)		GAGGCATCAGCGTCACATGTC	0.552000												
XRCC3	7517	broad.mit.edu	37	14	104165276	104165276	+	Silent	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr14:104165276C>T	uc001yny.3	-	10	1280	c.900G>A	c.(898-900)CGG>CGA	p.R300R	KLC1_uc010tyf.1_Intron|KLC1_uc001yno.2_Intron|KLC1_uc001yns.2_Intron|XRCC3_uc001ynx.3_Silent_p.R300R|XRCC3_uc001ynz.3_Silent_p.R300R|XRCC3_uc001yoa.3_Silent_p.R300R	NM_005432	NP_005423	O43542	XRCC3_HUMAN	X-ray repair cross complementing protein 3	300					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)		CCTCGCGGAGCCGGTCAGCCA	0.647000								Direct_reversal_of_damage|Homologous_recombination				
ZNF592	9640	broad.mit.edu	37	15	85327029	85327029	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr15:85327029G>A	uc002bld.2	+	4	1459	c.1123G>A	c.(1123-1125)GTG>ATG	p.V375M	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	375					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)			AATTCCCAAAGTGAGAATCAA	0.517000												
CHST6	4166	broad.mit.edu	37	16	75513350	75513350	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr16:75513350C>A	uc002fef.2	-	3	557	c.377G>T	c.(376-378)AGC>ATC	p.S126I	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.S126I	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	126	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						CAGTGCACGGCTCACGGCCCA	0.667000												
KIAA0513	9764	broad.mit.edu	37	16	85120758	85120758	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr16:85120758G>C	uc002fiu.2	+	12	1392	c.1172G>C	c.(1171-1173)GGC>GCC	p.G391A	KIAA0513_uc010voj.1_Missense_Mutation_p.G381A	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	391						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		GCTGTGATTGGCAACCTGGAT	0.602000											OREG0023994	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)
SLC13A2	9058	broad.mit.edu	37	17	26823469	26823469	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr17:26823469C>A	uc002hbh.2	+	11	1539	c.1472C>A	c.(1471-1473)GCC>GAC	p.A491D	SLC13A2_uc010wam.1_Missense_Mutation_p.A447D|SLC13A2_uc010wan.1_Missense_Mutation_p.A540D|SLC13A2_uc010wao.1_Missense_Mutation_p.A448D|SLC13A2_uc002hbi.2_Missense_Mutation_p.A420D	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	491	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)	CCACTCCAGGCCCAGGCCATC	0.647000												
CCDC40	55036	broad.mit.edu	37	17	78013901	78013901	+	Silent	SNP	A	A	G			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr17:78013901A>G	uc010dht.2	+	3	411	c.384A>G	c.(382-384)GCA>GCG	p.A128A	CCDC40_uc010wub.1_Silent_p.A128A	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	128					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)			GAGAGGAGGCATACGATAGTG	0.542000												
COLEC12	81035	broad.mit.edu	37	18	331713	331713	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr18:331713C>T	uc002kkm.2	-	8	2233	c.2018G>A	c.(2017-2019)CGT>CAT	p.R673H		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	673	Extracellular (Potential).|C-type lectin.				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)				TTCATTTTCACGCTCTGAGTC	0.473000												
SMAD4	4089	broad.mit.edu	37	18	48593406	48593406	+	Missense_Mutation	SNP	G	G	A	rs121912580		TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr18:48593406G>A	uc010xdp.1	+	10	1695	c.1157G>A	c.(1156-1158)GGT>GAT	p.G386D	SMAD4_uc002lfb.3_Missense_Mutation_p.G231D	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	386	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.G386R(5)|p.?(2)|p.G386C(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)		ATAGGCAAAGGTGTGCAGTTG	0.368000									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia			
SALL3	27164	broad.mit.edu	37	18	76753965	76753965	+	Silent	SNP	G	G	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr18:76753965G>A	uc002lmt.2	+	2	1974	c.1974G>A	c.(1972-1974)ACG>ACA	p.T658T	SALL3_uc010dra.2_Silent_p.T265T	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	658					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)		CGATGCAAACGTCGGAAACCT	0.642000												
STK11	6794	broad.mit.edu	37	19	1221993	1221993	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:1221993T>A	uc002lrl.1	+	7	2023	c.908T>A	c.(907-909)ATC>AAC	p.I303N		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	303	Protein kinase.		IRQH -> N (in PJS).		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)		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)		ATCCGGCAGATCCGGCAGCAC	0.692000		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)		
MUC16	94025	broad.mit.edu	37	19	9089662	9089662	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:9089662G>T	uc002mkp.2	-	1	2357	c.2153C>A	c.(2152-2154)ACC>AAC	p.T718N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	718	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						GCTTATCTTGGTGTGTCCTGC	0.498000												
CD22	933	broad.mit.edu	37	19	35828734	35828734	+	Silent	SNP	C	C	T	rs146504496	byFrequency	TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:35828734C>T	uc010edt.2	+	5	872	c.795C>T	c.(793-795)TGC>TGT	p.C265C	CD22_uc010xst.1_Silent_p.C93C|CD22_uc010edu.2_Silent_p.C265C|CD22_uc010edv.2_Silent_p.C265C|CD22_uc002nzb.3_Intron|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	265	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)	CCATGACCTGCGAGGTCAGCA	0.582000												
RBM42	79171	broad.mit.edu	37	19	36120513	36120513	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr19:36120513G>T	uc002oan.2	+	2	296	c.220G>T	c.(220-222)GCG>TCG	p.A74S	RBM42_uc010xsx.1_Missense_Mutation_p.A74S|RBM42_uc010eef.2_Missense_Mutation_p.A74S|RBM42_uc002oao.2_Missense_Mutation_p.A74S|RBM42_uc002oap.2_Missense_Mutation_p.A74S|RBM42_uc002oaq.2_Missense_Mutation_p.A74S|RBM42_uc010eeg.2_Missense_Mutation_p.A74S	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	74						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)			CACAGTAGAAGCGATGCAGGT	0.587000												
DNAJC5G	285126	broad.mit.edu	37	2	27499657	27499657	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:27499657G>A	uc002rjl.1	+	3	479	c.61G>A	c.(61-63)GTG>ATG	p.V21M	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Missense_Mutation_p.V21M|DNAJC5G_uc002rjm.1_Missense_Mutation_p.V21M	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	21	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTCTATGCAGTGCTGGATCT	0.483000												
FAM128A	653784	broad.mit.edu	37	2	132249846	132249846	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:132249846G>C	uc002tsw.3	-	1	219	c.104C>G	c.(103-105)ACC>AGC	p.T35S	LOC150776_uc010zax.1_5'Flank|LOC150776_uc010zay.1_5'Flank|LOC150776_uc010zaz.1_5'Flank|LOC150776_uc010fna.2_5'Flank|LOC150776_uc002tsy.3_5'Flank|FAM128A_uc002tsv.3_5'Flank|FAM128A_uc002tsx.1_5'Flank	NM_001085365	NP_001078834	Q6P582	MZT2A_HUMAN	hypothetical protein LOC653784	35						centrosome|gamma-tubulin ring complex|spindle					0				BRCA - Breast invasive adenocarcinoma(221;0.13)		CATCTCCTCGGTGCTCAGCAC	0.557000												
MMADHC	27249	broad.mit.edu	37	2	150426628	150426628	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:150426628G>A	uc002txb.2	-	7	1256	c.751C>T	c.(751-753)CAT>TAT	p.H251Y	MMADHC_uc002txc.2_Missense_Mutation_p.H251Y|MMADHC_uc010fnu.2_Missense_Mutation_p.H285Y	NM_015702	NP_056517	Q9H3L0	MMAD_HUMAN	methylmalonic aciduria (cobalamin deficiency)	251						mitochondrion				central_nervous_system(1)|skin(1)	2						AATCCTAAATGTCGGTAGCGT	0.368000												
TTN	7273	broad.mit.edu	37	2	179452394	179452394	+	Silent	SNP	A	A	G			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr2:179452394A>G	uc010zfg.1	-	255	56162	c.55938T>C	c.(55936-55938)GAT>GAC	p.D18646D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.D12341D|TTN_uc010zfi.1_Silent_p.D12274D|TTN_uc010zfj.1_Silent_p.D12149D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19573							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)			TGACCACATTATCAATGCCAA	0.458000												
CTNNB1	1499	broad.mit.edu	37	3	41266103	41266103	+	Missense_Mutation	SNP	G	G	A	rs121913399		TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:41266103G>A	uc010hia.1	+	4	256	c.100G>A	c.(100-102)GGA>AGA	p.G34R	CTNNB1_uc003ckp.2_Missense_Mutation_p.G34R|CTNNB1_uc003ckq.2_Missense_Mutation_p.G34R|CTNNB1_uc003ckr.2_Missense_Mutation_p.G34R|CTNNB1_uc011azf.1_Missense_Mutation_p.G27R|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	34			G -> E (in PTR).|G -> R (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.G34V(64)|p.G34E(64)|p.A5_A80del(63)|p.G34R(60)|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.W25_H36del(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.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.GIHS34?(1)|p.A5_I35del(1)|p.A20_Q143del(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.M1_A87del(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.E9_A80del(1)|p.G34_S37del(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.V22_Y64del(1)|p.M8_A80del(1)|p.S33_S37del(1)|p.E9_I140del(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.W25_A80del(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)	CCTGGACTCTGGAATCCATTC	0.488000		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of			
HYAL2	8692	broad.mit.edu	37	3	50357457	50357457	+	Nonsense_Mutation	SNP	G	G	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:50357457G>T	uc003czu.2	-	2	684	c.464C>A	c.(463-465)TCA>TAA	p.S155*	HYAL2_uc003czx.2_Nonsense_Mutation_p.S155*|HYAL2_uc003czv.2_Nonsense_Mutation_p.S155*|HYAL2_uc003czw.2_Nonsense_Mutation_p.S155*|HYAL2_uc010hlj.2_Nonsense_Mutation_p.S155*	NM_033158	NP_149348	Q12891	HYAL2_HUMAN	hyaluronoglucosaminidase 2 precursor	155						anchored to membrane|lysosome|plasma membrane	hyalurononglucosaminidase activity|receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)	Hyaluronidase(DB00070)	TAGCTGGCGTGATAACCGGCG	0.587000												
KIAA1524	57650	broad.mit.edu	37	3	108298210	108298210	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:108298210C>T	uc003dxb.3	-	7	1005	c.736G>A	c.(736-738)GAT>AAT	p.D246N	KIAA1524_uc003dxc.1_Missense_Mutation_p.D87N|KIAA1524_uc010hpw.1_Missense_Mutation_p.D87N	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	246						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						AGAGTGCCATCACCGTTTATG	0.338000												
ATR	545	broad.mit.edu	37	3	142268402	142268402	+	Silent	SNP	T	T	G			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr3:142268402T>G	uc003eux.3	-	15	3212	c.3090A>C	c.(3088-3090)ATA>ATC	p.I1030I		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1030					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						TGAAGTTGTTTATTAAAATCT	0.333000								Other_conserved_DNA_damage_response_genes				
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	5	139907772	139907772	+	Silent	SNP	T	T	G			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr5:139907772T>G	uc003lfs.1	+	29	5365	c.5241T>G	c.(5239-5241)GGT>GGG	p.G1747G	ANKHD1_uc003lfr.2_Silent_p.G1747G|ANKHD1-EIF4EBP3_uc011czh.1_Silent_p.G486G|ANKHD1_uc003lfw.2_Silent_p.G385G|ANKHD1_uc010jfl.2_Silent_p.G182G|ANKHD1-EIF4EBP3_uc003lfx.1_5'UTR	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1747						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTTAGGGGTGGCACAGAAT	0.274000												
FAM65B	9750	broad.mit.edu	37	6	24861261	24861261	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:24861261T>A	uc003neo.1	-	8	744	c.568A>T	c.(568-570)ATG>TTG	p.M190L	FAM65B_uc011djs.1_Missense_Mutation_p.M219L|FAM65B_uc011dju.1_Missense_Mutation_p.M224L|FAM65B_uc003nep.2_Missense_Mutation_p.M190L|FAM65B_uc011djt.1_Missense_Mutation_p.M190L	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	190					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						ATGGTGCACATATTCTGCAAA	0.458000												
FYN	2534	broad.mit.edu	37	6	112035642	112035642	+	Silent	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:112035642C>T	uc003pvj.2	-	4	592	c.252G>A	c.(250-252)GTG>GTA	p.V84V	FYN_uc003pvi.2_Silent_p.V84V|FYN_uc003pvk.2_Silent_p.V84V|FYN_uc003pvh.2_Silent_p.V84V	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	84	SH3.				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)	CAAAGAGTGTCACTCCTGCCG	0.363000												
FAM131B	9715	broad.mit.edu	37	7	143056064	143056064	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr7:143056064C>T	uc003wct.2	-	4	1944	c.238G>A	c.(238-240)GGC>AGC	p.G80S	FAM131B_uc010loz.2_Missense_Mutation_p.G48S|FAM131B_uc003wcu.3_Missense_Mutation_p.G80S|FAM131B_uc010lpa.2_Missense_Mutation_p.G108S|ZYX_uc011ktd.1_5'Flank	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	80											0	Melanoma(164;0.205)					GCCACCCGGCCTTGCCCCATG	0.572000												
MAMDC2	256691	broad.mit.edu	37	9	72758553	72758553	+	Silent	SNP	T	T	C			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:72758553T>C	uc004ahm.2	+	9	1839	c.1222T>C	c.(1222-1224)TTG>CTG	p.L408L	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	408	MAM 3.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						ACCAGGAAACTTGCAGTATTG	0.428000												
KIF27	55582	broad.mit.edu	37	9	86514643	86514643	+	Missense_Mutation	SNP	A	A	C			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:86514643A>C	uc004ana.2	-	5	1679	c.1535T>G	c.(1534-1536)ATG>AGG	p.M512R	KIF27_uc010mpw.2_Missense_Mutation_p.M512R|KIF27_uc010mpx.2_Missense_Mutation_p.M512R	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	512	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						CTGTACCATCATCTGCACTTG	0.408000												
OR13D1	286365	broad.mit.edu	37	9	107457321	107457321	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:107457321G>T	uc011lvs.1	+	1	619	c.619G>T	c.(619-621)GAT>TAT	p.D207Y		NM_001004484	NP_001004484	Q8NGV5	O13D1_HUMAN	olfactory receptor, family 13, subfamily D,	207	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TAATGTCATTGATCATATTAC	0.398000												
SPTAN1	6709	broad.mit.edu	37	9	131329027	131329027	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr9:131329027C>A	uc004bvl.3	+	2	121	c.8C>A	c.(7-9)CCA>CAA	p.P3Q	SPTAN1_uc011mbg.1_Missense_Mutation_p.P3Q|SPTAN1_uc011mbh.1_Missense_Mutation_p.P15Q|SPTAN1_uc004bvm.3_Missense_Mutation_p.P3Q|SPTAN1_uc004bvn.3_Missense_Mutation_p.P3Q	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	3					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						AAAATGGACCCAAGTGGGGTC	0.453000												
USP51	158880	broad.mit.edu	37	X	55513296	55513296	+	Silent	SNP	A	A	G			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chrX:55513296A>G	uc004dun.1	-	2	2156	c.2077T>C	c.(2077-2079)TTA>CTA	p.L693L	USP51_uc011moo.1_Silent_p.L397L	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						CTGTAGAGTAAGTCCTCAATG	0.423000												
SLC22A3	6581	broad.mit.edu	37	6	160829854	160829855	+	Frame_Shift_Ins	INS	-	-	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:160829854_160829855insA	uc003qti.2	+	4	785_786	c.758_759insA	c.(757-759)GGAfs	p.G253fs	SLC22A3_uc011efx.1_RNA	NM_021977	NP_068812	O75751	S22A3_HUMAN	solute carrier family 22 member 3	253	Helical; (Potential).					integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		TTTACCCTTGGAATCATAATTC	0.431												
SLC22A3	6581	broad.mit.edu	37	6	160829855	160829856	+	Frame_Shift_Ins	INS	-	-	A			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr6:160829854_160829855G>GA	uc003qti.3	+	3	785_786	c.758_759G>GA	c.(757-759)ggafs	p.G253fs	SLC22A3_uc011efx.2_Non-coding_Transcript	NM_021977	NP_068812	O75751	S22A3_HUMAN	Homo sapiens solute carrier family 22 (extraneuronal monoamine transporter), member 3 (SLC22A3), mRNA.	253						integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	27		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)		TTTACCCTTGGAATCATAATTC	0.431												
CLIP2	7461	broad.mit.edu	37	7	73790500	73790501	+	In_Frame_Ins	INS	-	-	AGG			TCGA-BR-A4J6-01A-11D-A25D-08	TCGA-BR-A4J6-10A-01D-A25E-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cdf42f08-5348-4fdf-916f-690fa42dbf1a	d60221e2-c5fc-4d88-aa85-5b46712ce4c8	g.chr7:73790499_73790500C>CAGG	uc003uam.3	+	9	2095_2096	c.1768_1769C>CAGG	c.(1768-1770)cag>CAGGg	p.Q590Q	CLIP2_uc003uan.3_In_Frame_Ins_p.Q555Q|CLIP2_uc003uao.3_5'UTR	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	Homo sapiens CAP-GLY domain containing linker protein 2 (CLIP2), transcript variant 1, mRNA.	590						microtubule associated complex				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(13)|pancreas(1)|prostate(2)|skin(3)	30						GAAGTACGCACAGGAGGTGGCG	0.619												
