Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
CYP4F24P	388514	broad.mit.edu	37	19	15871166	15871166	+	RNA	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr19:15871166G>A	ENST00000587443.2	-	0	1446					NR_033864.1																						AAGCGGAAGCGCAGCAGCGTC	0.667000													5	19					0	0	1	0	0
FADS3	3995	broad.mit.edu	37	11	61645010	61645010	+	Silent	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr11:61645010C>T	ENST00000540820.1	-	7	930	c.858G>A	c.(856-858)gcG>gcA	p.A286A	FADS3_ENST00000525588.1_Silent_p.A258A|FADS3_ENST00000278829.2_Silent_p.A286A|FADS3_ENST00000527697.1_Silent_p.A162A			Q9Y5Q0	FADS3_HUMAN	fatty acid desaturase 3	286					electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	heme binding|oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	15						CCAGCATGTACGCCAGATTTT	0.637000													10	42					0	0	1	0	0
C16orf71	146562	broad.mit.edu	37	16	4790576	4790576	+	Silent	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr16:4790576G>A	ENST00000299320.5	+	4	1177	c.699G>A	c.(697-699)gcG>gcA	p.A233A	C16orf71_ENST00000590191.1_Silent_p.A247A|RP11-127I20.7_ENST00000588099.1_RNA	NM_139170.2	NP_631909.2	Q8IYS4	CP071_HUMAN	chromosome 16 open reading frame 71	233								p.A233A(1)		breast(1)|central_nervous_system(1)|large_intestine(4)|lung(4)|ovary(1)	11						TGAAGGAGGCGCCCTGCCACG	0.637000													5	76					0	0	1	0	0
OR10H2	26538	broad.mit.edu	37	19	15839076	15839076	+	Missense_Mutation	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr19:15839076G>A	ENST00000305899.3	+	1	243	c.223G>A	c.(223-225)Gtg>Atg	p.V75M		NM_013939.2	NP_039227.1	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H, member 2	75					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(1)	27	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CCTCTACACCGTGGCCATCAT	0.622000													36	99					0	0	1	0	0
NPTN	27020	broad.mit.edu	37	15	73862761	73862761	+	Missense_Mutation	SNP	T	T	C			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr15:73862761T>C	ENST00000351217.6	-	5	1414	c.496A>G	c.(496-498)Att>Gtt	p.I166V	NPTN_ENST00000564551.1_5'UTR|NPTN_ENST00000562924.1_Missense_Mutation_p.I166V|NPTN_ENST00000545878.1_Missense_Mutation_p.I282V|NPTN_ENST00000287226.8_Missense_Mutation_p.I282V|NPTN_ENST00000345330.4_Missense_Mutation_p.I282V|NPTN_ENST00000563691.1_Missense_Mutation_p.I282V|NPTN_ENST00000542234.1_Missense_Mutation_p.I77V	NM_001161364.1|NM_017455.3	NP_001154836.1|NP_059429.1	Q9Y639	NPTN_HUMAN	neuroplastin	282	Ig-like 2.				elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding			breast(2)|cervix(1)|endometrium(2)|large_intestine(2)|lung(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	13						GTATTGACAATGTCCTGCAAA	0.453000													9	32					0	0	1	0	0
FBXW12	285231	broad.mit.edu	37	3	48423216	48423216	+	Missense_Mutation	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr3:48423216G>A	ENST00000296438.5	+	9	1198	c.1012G>A	c.(1012-1014)Gca>Aca	p.A338T	FBXW12_ENST00000415155.1_Missense_Mutation_p.A268T|FBXW12_ENST00000436231.1_Missense_Mutation_p.A181T|FBXW12_ENST00000468158.1_3'UTR|FBXW12_ENST00000445170.1_Missense_Mutation_p.A319T	NM_207102.2	NP_996985.2	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12	338										breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	16				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTTCCAGGTGGCAGCTCATCT	0.403000													10	34					0	0	1	0	0
KDM2A	22992	broad.mit.edu	37	11	67021837	67021837	+	Silent	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr11:67021837C>T	ENST00000529006.2	+	20	3701	c.3255C>T	c.(3253-3255)ctC>ctT	p.L1085L	KDM2A_ENST00000526258.1_3'UTR|KDM2A_ENST00000398645.2_3'UTR|KDM2A_ENST00000530342.1_Silent_p.L646L|KDM2A_ENST00000308783.5_Silent_p.L543L	NM_012308.2	NP_036440.1	Q9Y2K7	KDM2A_HUMAN	lysine (K)-specific demethylase 2A	1085					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			NS(1)|breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(15)|ovary(5)|skin(1)|urinary_tract(2)	36						CCAATCTACTCACTGCTGTCG	0.557000													19	100					0	0	1	0	0
KRT14	3861	broad.mit.edu	37	17	39739887	39739887	+	Silent	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr17:39739887C>T	ENST00000167586.6	-	5	1055	c.969G>A	c.(967-969)ctG>ctA	p.L323L		NM_000526.4	NP_000517.2	P02533	K1C14_HUMAN	keratin 14	323	Coil 2.|Rod.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(3)|lung(7)|ovary(1)|prostate(5)|skin(1)|stomach(1)	25		Breast(137;0.000307)				CGCTCTGCACCAGCTCGCTGT	0.587000													26	111					0	0	1	0	0
OR52K2	119774	broad.mit.edu	37	11	4471294	4471294	+	Missense_Mutation	SNP	C	C	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr11:4471294C>A	ENST00000325719.4	+	1	770	c.725C>A	c.(724-726)aCa>aAa	p.T242K		NM_001005172.2	NP_001005172.2	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K, member 2	242					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(2)|breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|skin(6)	25		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)		GCATTTGGGACATGTGTCTCT	0.507000													41	108					4.40281e-34	4.51019e-34	1	1	0
FAM117A	81558	broad.mit.edu	37	17	47794987	47794987	+	Silent	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr17:47794987G>A	ENST00000240364.2	-	6	877	c.798C>T	c.(796-798)aaC>aaT	p.N266N	RP11-613C6.2_ENST00000512720.1_RNA|FAM117A_ENST00000514018.1_5'UTR|FAM117A_ENST00000513602.1_5'UTR	NM_030802.3	NP_110429.1	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	266										haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	17						AGCTGGCAAGGTTGCCAGGCT	0.632000													17	55					0	0	1	0	0
MGA	23269	broad.mit.edu	37	15	42003311	42003311	+	Nonsense_Mutation	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr15:42003311C>T	ENST00000219905.7	+	8	3029	c.2848C>T	c.(2848-2850)Cag>Tag	p.Q950*	MGA_ENST00000570161.1_Nonsense_Mutation_p.Q950*|MGA_ENST00000566586.1_Nonsense_Mutation_p.Q950*|MGA_ENST00000389936.4_Nonsense_Mutation_p.Q950*|MGA_ENST00000545763.1_Nonsense_Mutation_p.Q950*	NM_001164273.1	NP_001157745.1	Q8IWI9	MGAP_HUMAN	MGA, MAX dimerization protein	950						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			NS(1)|breast(4)|central_nervous_system(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(33)|ovary(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CTCAGAAAATCAGGCGAATAA	0.413000													14	59					0	0	1	0	0
GRID2	2895	broad.mit.edu	37	4	93511314	93511314	+	Missense_Mutation	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr4:93511314G>A	ENST00000282020.4	+	2	379	c.121G>A	c.(121-123)Gat>Aat	p.D41N	GRID2_ENST00000510992.1_Missense_Mutation_p.D41N|GRID2_ENST00000505687.1_3'UTR	NM_001510.2	NP_001501.2	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	41					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			NS(2)|breast(2)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(18)|lung(45)|ovary(3)|prostate(6)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(1)	100		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CAAAAAGGATGATGAGGTATT	0.368000													4	39					0	0	1	0	0
XIRP1	165904	broad.mit.edu	37	3	39228755	39228755	+	Missense_Mutation	SNP	A	A	G			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr3:39228755A>G	ENST00000340369.3	-	2	2410	c.2182T>C	c.(2182-2184)Ttc>Ctc	p.F728L	XIRP1_ENST00000421646.1_Intron|XIRP1_ENST00000396251.1_Missense_Mutation_p.F728L	NM_194293.2	NP_919269.2	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	728							actin binding			breast(4)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(14)|lung(22)|ovary(4)|pancreas(1)|prostate(2)|skin(6)	71				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		AGCCAAGTGAACTTGTGGACA	0.582000													8	51					0	0	1	0	0
ADCY9	115	broad.mit.edu	37	16	4164782	4164782	+	Missense_Mutation	SNP	A	A	G			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr16:4164782A>G	ENST00000294016.3	-	2	1200	c.662T>C	c.(661-663)gTg>gCg	p.V221A		NM_001116.3	NP_001107.2	O60503	ADCY9_HUMAN	adenylate cyclase 9	221					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			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	47						GAAGCTCCCCACTTGAGATAA	0.557000													30	74					0	0	1	0	0
IL10RB	3588	broad.mit.edu	37	21	34652077	34652077	+	Missense_Mutation	SNP	A	A	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr21:34652077A>T	ENST00000290200.2	+	4	460	c.352A>T	c.(352-354)Atg>Ttg	p.M118L	AP000295.9_ENST00000433395.2_Missense_Mutation_p.E245D	NM_000628.4	NP_000619.3			interleukin 10 receptor, beta											endometrium(1)|kidney(1)|large_intestine(6)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	14						ACCCCCTGGAATGCAAGTAGA	0.338000													13	41					0	0	1	0	0
IKZF1	10320	broad.mit.edu	37	7	50450266	50450266	+	Silent	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr7:50450266C>T	ENST00000331340.3	+	5	605	c.450C>T	c.(448-450)tgC>tgT	p.C150C	IKZF1_ENST00000438033.1_Silent_p.C63C|IKZF1_ENST00000357364.4_Silent_p.C150C|IKZF1_ENST00000349824.4_Intron|IKZF1_ENST00000439701.1_Silent_p.C150C|IKZF1_ENST00000346667.4_Intron|IKZF1_ENST00000359197.5_Silent_p.C150C|IKZF1_ENST00000343574.5_Silent_p.C63C|IKZF1_ENST00000440768.2_Silent_p.C150C	NM_001220769.1|NM_001220772.1|NM_001220773.1|NM_001220775.1|NM_006060.4	NP_001207698.1|NP_001207701.1|NP_001207702.1|NP_001207704.1|NP_006051.1	Q13422	IKZF1_HUMAN	IKAROS family zinc finger 1 (Ikaros)	150					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.?(131)		haematopoietic_and_lymphoid_tissue(275)|lung(1)	276	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				GCAATCAGTGCGGGGCCTCAT	0.592000			"""D,T"""	BCL6	"""ALL, DLBCL"""								11	17					0	0	1	0	0
TNFAIP2	7127	broad.mit.edu	37	14	103593769	103593769	+	Silent	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr14:103593769C>T	ENST00000560869.1	+	3	1302	c.663C>T	c.(661-663)ggC>ggT	p.G221G	TNFAIP2_ENST00000333007.1_Silent_p.G221G			Q03169	TNAP2_HUMAN	tumor necrosis factor, alpha-induced protein 2	221					angiogenesis|cell differentiation	extracellular space				NS(1)|breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(4)|prostate(1)|upper_aerodigestive_tract(1)	11		Melanoma(154;0.155)	Epithelial(46;0.191)			TGCACTTGGGCCGCACCATGA	0.741000													4	15					0	0	1	0	0
LCT	3938	broad.mit.edu	37	2	136575021	136575021	+	Missense_Mutation	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr2:136575021G>A	ENST00000264162.2	-	6	1607	c.1597C>T	c.(1597-1599)Cgt>Tgt	p.R533C		NM_002299.2	NP_002290.2	P09848	LPH_HUMAN	lactase	533	4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			breast(6)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(26)|lung(57)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(4)	124				BRCA - Breast invasive adenocarcinoma(221;0.169)		AGCTTCACACGGTCCCCAAAT	0.617000													24	62					0	0	1	0	0
CHST8	64377	broad.mit.edu	37	19	34263913	34263913	+	Missense_Mutation	SNP	A	A	G			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr19:34263913A>G	ENST00000262622.3	+	4	1978	c.1220A>G	c.(1219-1221)tAc>tGc	p.Y407C	CHST8_ENST00000434302.1_Missense_Mutation_p.Y407C|CHST8_ENST00000438847.2_Missense_Mutation_p.Y407C	NM_022467.3	NP_071912.2	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 8	407					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			NS(1)|endometrium(3)|kidney(2)|large_intestine(4)|liver(2)|lung(8)|ovary(1)|prostate(1)|skin(5)	27	Esophageal squamous(110;0.162)					TACGACTTCTACTACATGGAT	0.627000													27	54					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr7:140453136A>T	ENST00000288602.6	-	15	1859	c.1799T>A	c.(1798-1800)gTg>gAg	p.V600E		NM_004333.4	NP_004324.2	P15056	BRAF_HUMAN	v-raf murine sarcoma viral oncogene homolog B	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		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	p.V600E(15453)|p.V600K(252)|p.V600R(44)|p.V600D(16)|p.V600A(12)|p.V600_K601>E(12)|p.V600G(11)|p.T599_R603>I(2)|p.V600Q(2)|p.V600_S605>EK(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insDFGLAT(1)	SLC45A3/BRAF(2)|AGTRAP/BRAF(2)|FAM131B_ENST00000443739/BRAF(7)|AKAP9_ENST00000356239/BRAF(10)|KIAA1549/BRAF(703)|FCHSD1/BRAF(2)	NS(588)|adrenal_gland(3)|autonomic_ganglia(3)|biliary_tract(29)|bone(7)|breast(21)|central_nervous_system(99)|cervix(6)|endometrium(33)|eye(72)|gastrointestinal_tract_(site_indeterminate)(2)|genital_tract(4)|haematopoietic_and_lymphoid_tissue(436)|kidney(3)|large_intestine(6953)|liver(17)|lung(192)|oesophagus(4)|ovary(275)|pancreas(15)|pituitary(1)|prostate(25)|salivary_gland(1)|skin(6285)|small_intestine(12)|soft_tissue(40)|stomach(11)|testis(7)|thyroid(12220)|upper_aerodigestive_tract(13)|urinary_tract(3)	27380	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600D(K029AX_SKIN)|V600D(WM115_SKIN)|V600D(WM2664_SKIN)|V600E(8505C_THYROID)|V600E(A101D_SKIN)|V600E(A2058_SKIN)|V600E(A375_SKIN)|V600E(A673_BONE)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(BCPAP_THYROID)|V600E(BHT101_THYROID)|V600E(BT474_BREAST)|V600E(C32_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(COLO205_LARGE_INTESTINE)|V600E(COLO679_SKIN)|V600E(COLO741_SKIN)|V600E(COLO783_SKIN)|V600E(COLO800_SKIN)|V600E(COLO818_SKIN)|V600E(COLO829_SKIN)|V600E(COLO849_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(DU4475_BREAST)|V600E(ES2_OVARY)|V600E(G361_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(HS294T_SKIN)|V600E(HS695T_SKIN)|V600E(HS939T_SKIN)|V600E(IGR1_SKIN)|V600E(IGR37_SKIN)|V600E(IGR39_SKIN)|V600E(K029AX_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(LOXIMVI_SKIN)|V600E(MALME3M_SKIN)|V600E(MELHO_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(RKO_LARGE_INTESTINE)|V600E(RPMI7951_SKIN)|V600E(RVH421_SKIN)|V600E(SH4_SKIN)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(SKHEP1_LIVER)|V600E(SKMEL24_SKIN)|V600E(SKMEL28_SKIN)|V600E(SKMEL5_SKIN)|V600E(SW1417_LARGE_INTESTINE)|V600E(UACC257_SKIN)|V600E(UACC62_SKIN)|V600E(WM793_SKIN)|V600E(WM88_SKIN)|V600E(WM983B_SKIN)	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				9	21					0	0	1	0	0
WFDC10A	140832	broad.mit.edu	37	20	44258523	44258523	+	Missense_Mutation	SNP	G	G	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr20:44258523G>A	ENST00000372643.3	+	1	359	c.71G>A	c.(70-72)cGt>cAt	p.R24H	WFDC9_ENST00000326000.1_Intron	NM_080753.2	NP_542791.1	Q9H1F0	WF10A_HUMAN	WAP four-disulfide core domain 10A	24						extracellular region	serine-type endopeptidase inhibitor activity			large_intestine(2)	2		Myeloproliferative disorder(115;0.0122)				GGAGGATACCGTGACAAGAAG	0.582000											OREG0025983	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	19					0	0	1	0	0
KRTAP4-8	728224	broad.mit.edu	37	17	39254054	39254054	+	Missense_Mutation	SNP	A	A	T	rs76270529	by1000genomes	TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr17:39254054A>T	ENST00000333822.4	-	1	339	c.283T>A	c.(283-285)Tgc>Agc	p.C95S		NM_031960.2	NP_114166.1	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4-8	95	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].					keratin filament		p.C95S(4)		endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|prostate(1)	11						ctggagatgcagcagcTAGGG	0.677000													5	63					0	0	1	0	0
ZNF331	55422	broad.mit.edu	37	19	54080589	54080589	+	Missense_Mutation	SNP	A	A	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr19:54080589A>T	ENST00000253144.9	+	7	2108	c.775A>T	c.(775-777)Att>Ttt	p.I259F	ZNF331_ENST00000411977.2_Missense_Mutation_p.I259F|ZNF331_ENST00000511593.2_Missense_Mutation_p.I259F|ZNF331_ENST00000513999.1_Missense_Mutation_p.I259F|ZNF331_ENST00000513265.1_Intron|ZNF331_ENST00000512387.1_Missense_Mutation_p.I259F|ZNF331_ENST00000449416.1_Missense_Mutation_p.I259F|ZNF331_ENST00000511154.1_Missense_Mutation_p.I259F	NM_001253801.1|NM_018555.5	NP_001240730.1|NP_061025.5	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	259					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|large_intestine(1)|lung(1)|ovary(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	10				GBM - Glioblastoma multiforme(134;0.00555)		GTATAAACTTATTCAGCACAA	0.448000			T	?	follicular thyroid adenoma								10	36					0	0	1	0	0
TMEM120A	83862	broad.mit.edu	37	7	75617065	75617065	+	RNA	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr7:75617065C>T	ENST00000493111.2	-	0	754				TMEM120A_ENST00000338761.4_RNA			Q9BXJ8	T120A_HUMAN	transmembrane protein 120A							integral to membrane											GTGCCGCTCGCCCAGCGCCCG	0.662000													7	37					0	0	1	0	0
RGMA	56963	broad.mit.edu	37	15	93595488	93595488	+	Missense_Mutation	SNP	C	C	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr15:93595488C>T	ENST00000329082.7	-	3	651	c.380G>A	c.(379-381)cGc>cAc	p.R127H	RGMA_ENST00000538818.1_Missense_Mutation_p.R18H|RGMA_ENST00000556658.1_Missense_Mutation_p.R18H|RGMA_ENST00000542321.2_Missense_Mutation_p.R111H|RGMA_ENST00000557301.1_Missense_Mutation_p.R135H|RGMA_ENST00000556087.1_Missense_Mutation_p.R111H|RGMA_ENST00000543599.1_Missense_Mutation_p.R111H|RGMA_ENST00000557420.1_Intron|RGMA_ENST00000425933.2_Missense_Mutation_p.R111H	NM_020211.2	NP_064596.2	Q96B86	RGMA_HUMAN	repulsive guidance molecule family member a	127					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane				breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	9	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			TGGGAGCGTGCGCAGGCGTGG	0.652000													23	83					0	0	1	0	0
NBPF15	284565	broad.mit.edu	37	1	148594507	148594507	+	Frame_Shift_Del	DEL	A	A	-			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr1:148594507delA	ENST00000442702.2	+	21	2947	c.1880delA	c.(1879-1881)ccfs	p.H627fs	NBPF15_ENST00000369187.3_Frame_Shift_Del_p.H627fs	NM_001170755.1	NP_001164226.1	Q8N660	NBPFF_HUMAN	neuroblastoma breakpoint family, member 15	627	NBPF 6.					cytoplasm				NS(1)|cervix(1)|endometrium(1)|large_intestine(4)|lung(3)|skin(2)	12	all_hematologic(923;0.032)					TCATTCCAGCACTACAGAAGT	0.443													9	252	---	---	---	---					
HLA-V	352962	broad.mit.edu	37	6	29760353	29760373	+	RNA	DEL	GCGGGCGCCGTGGATGGAGCA	GCGGGCGCCGTGGATGGAGCA	-	rs74661005	by1000genomes	TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr6:29760353_29760373delGCGGGCGCCGTGGATGGAGCA	ENST00000457107.1	+	0	223_243																											GGATGGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCG	0.674													5	4	---	---	---	---					
STAG3L4	64940	broad.mit.edu	37	7	66767610	66767611	+	RNA	INS	-	-	G	rs71293166	by1000genomes	TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr7:66767610_66767611insG	ENST00000416602.2	+	0	3_4					NR_040586.1		Q8TBR4	STG34_HUMAN												endometrium(2)|lung(5)	7		Lung NSC(55;0.0839)|all_lung(88;0.181)				CACCGGACTGCTTTTTTTTTTT	0.545													3	6	---	---	---	---					
SUGT1P3	283507	broad.mit.edu	37	13	41486862	41486862	+	RNA	DEL	A	A	-			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr13:41486862delA	ENST00000304932.4	-	0	214					NR_003365.2																						cgtctctactaaaaaaaaaat	0.517													3	5	---	---	---	---					
HERC2P2	400322	broad.mit.edu	37	15	23299146	23299147	+	RNA	INS	-	-	A			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr15:23299146_23299147insA	ENST00000560464.1	-	0	4510																											TACATTCAAAGAAAAAAAAAAA	0.317													2	4	---	---	---	---					
RRN3P2	653390	broad.mit.edu	37	16	29113498	29113498	+	RNA	DEL	T	T	-	rs11366120		TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr16:29113498delT	ENST00000564580.1	+	0	1360																											AGGAGGTGGAttttttttttc	0.542													5	9	---	---	---	---					
SRP68	6730	broad.mit.edu	37	17	74068528	74068530	+	In_Frame_Del	DEL	GCC	GCC	-			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr17:74068528_74068530delGCC	ENST00000307877.2	-	1	204_206	c.43_45delGGC	c.(43-45)del	p.G15del	SRP68_ENST00000539137.1_In_Frame_Del_p.G15del|SRP68_ENST00000355113.5_5'UTR	NM_014230.3	NP_055045.2	Q9UHB9	SRP68_HUMAN	signal recognition particle 68kDa	15	Poly-Gly.			Missing (in Ref. 1).	response to drug	cytosol|endoplasmic reticulum|nucleolus|ribosome|signal recognition particle, endoplasmic reticulum targeting	RNA binding|signal recognition particle binding			NS(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(5)|lung(4)|ovary(2)|prostate(3)	23						cgccgccactgccgccgccgccg	0.709													7	259	---	---	---	---					
DLGAP4	22839	broad.mit.edu	37	20	35060511	35060512	+	Frame_Shift_Ins	INS	-	-	T			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr20:35060511_35060512insT	ENST00000373913.3	+	3	871_872	c.391_392insT	c.(391-393)ccgfs	p.P131fs	DLGAP4_ENST00000373907.2_Frame_Shift_Ins_p.P131fs|DLGAP4_ENST00000401952.2_Frame_Shift_Ins_p.P131fs|DLGAP4_ENST00000339266.5_Frame_Shift_Ins_p.P131fs			Q9Y2H0	DLGP4_HUMAN	discs, large (Drosophila) homolog-associated protein 4	131					cell-cell signaling	membrane	protein binding			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(20)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	37	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CGAGGCCAAGGCCCGTGGTGAG	0.649													30	110	---	---	---	---					
CBR3-AS1	100506428	broad.mit.edu	37	21	37518922	37518922	+	RNA	DEL	T	T	-			TCGA-91-A4BD-01A-11D-A24D-08	TCGA-91-A4BD-10A-01D-A24F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7bff9689-fa15-47fc-9e30-9453355ca0a9	b4b32ea8-e727-4f29-936f-9ce180d4fa18	g.chr21:37518922delT	ENST00000413862.1	-	0	79				CBR3-AS1_ENST00000453159.1_RNA|CBR3-AS1_ENST00000427491.1_RNA	NR_038892.1																						agtctcgctcttgttgcccag	0.478													3	4	---	---	---	---					
