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
MGST1	4257	broad.mit.edu	37	12	16516841	16516841	+	Missense_Mutation	SNP	G	G	A	rs139915404		TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr12:16516841G>A	ENST00000396209.1	+	4	477	c.334G>A	c.(334-336)Gga>Aga	p.G112R	MGST1_ENST00000540056.1_3'UTR|MGST1_ENST00000396210.3_Missense_Mutation_p.G112R|MGST1_ENST00000535309.1_Intron|MGST1_ENST00000396207.1_Missense_Mutation_p.G112R|MGST1_ENST00000010404.2_Missense_Mutation_p.G112R	NM_145791.2	NP_665734.1	P10620	MGST1_HUMAN	microsomal glutathione S-transferase 1	112					protein homotrimerization|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	glutathione transferase activity			endometrium(2)|large_intestine(2)|lung(4)|ovary(1)	9		Hepatocellular(102;0.121)			Glutathione(DB00143)	ACTATTTGTCGGAGCACGGAT	0.453000													42	74					0	0	1	0	0
KRTAP10-3	386682	broad.mit.edu	37	21	45978263	45978263	+	Silent	SNP	G	G	T			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr21:45978263G>T	ENST00000391620.1	-	1	380	c.336C>A	c.(334-336)ccC>ccA	p.P112P	TSPEAR_ENST00000397916.1_Intron|TSPEAR_ENST00000323084.4_Intron	NM_198696.2	NP_941969.2	P60369	KR103_HUMAN	keratin associated protein 10-3	112	18 X 5 AA repeats of C-C-X(3).					keratin filament				kidney(1)|lung(4)|prostate(1)|skin(1)	7						tgcagcagacgggcacacagc	0.647000													7	125					1.76689e-08	1.99736e-08	1	1	0
DENND4A	10260	broad.mit.edu	37	15	65962141	65962141	+	Missense_Mutation	SNP	A	A	C			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr15:65962141A>C	ENST00000443035.3	-	27	4975	c.4760T>G	c.(4759-4761)gTt>gGt	p.V1587G	DENND4A_ENST00000431932.2_Missense_Mutation_p.V1544G	NM_001144823.1	NP_001138295.1	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A	1544					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(17)|lung(11)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	51						ATTCCCTTGAACAGAGAGAGC	0.338000													8	5					0	0	1	0	0
TFIP11	24144	broad.mit.edu	37	22	26890809	26890809	+	Missense_Mutation	SNP	C	C	A			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr22:26890809C>A	ENST00000407690.1	-	13	2229	c.1946G>T	c.(1945-1947)aGc>aTc	p.S649I	TFIP11_ENST00000407148.1_Missense_Mutation_p.S649I|TFIP11_ENST00000405938.1_Missense_Mutation_p.S649I|TFIP11_ENST00000407431.1_Missense_Mutation_p.S649I	NM_012143.2	NP_036275.1	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	649					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|endometrium(5)|kidney(2)|large_intestine(5)|liver(1)|lung(7)|prostate(2)|skin(1)|urinary_tract(1)	25						TCCCACCAGGCTAGAGACAGA	0.502000													3	32					1	1	1	1	0
RP11-156P1.3	0	broad.mit.edu	37	17	45128792	45128792	+	RNA	SNP	G	G	T	rs143713325	by1000genomes	TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr17:45128792G>T	ENST00000575173.1	-	0	418																											AATTCAGGTTGTCAGAATGCA	0.373000													4	46					0.00909568	0.00945951	1	1	0
BPTF	2186	broad.mit.edu	37	17	65850649	65850649	+	Missense_Mutation	SNP	C	C	T			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr17:65850649C>T	ENST00000321892.4	+	2	1268	c.1207C>T	c.(1207-1209)Ctt>Ttt	p.L403F	BPTF_ENST00000335221.5_Missense_Mutation_p.L403F|BPTF_ENST00000424123.3_Missense_Mutation_p.L264F|BPTF_ENST00000306378.6_Missense_Mutation_p.L403F			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	403					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			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGGGGATTTGCTTTGCTGTGA	0.453000													4	129					0	0	1	0	0
ERCC6L	54821	broad.mit.edu	37	X	71425181	71425181	+	Missense_Mutation	SNP	G	G	T			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chrX:71425181G>T	ENST00000373657.1	-	3	3669	c.3067C>A	c.(3067-3069)Cct>Act	p.P1023T	ERCC6L_ENST00000334463.3_Missense_Mutation_p.P1146T|PIN4_ENST00000423432.2_Intron			Q2NKX8	ERC6L_HUMAN	excision repair cross-complementing rodent repair deficiency, complementation group 6-like	1146					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			breast(2)|cervix(1)|endometrium(9)|kidney(4)|large_intestine(9)|lung(9)|ovary(3)|skin(1)	38	Renal(35;0.156)					TCTCCGGAAGGATCCTCTTCT	0.502000													24	24					6.44725e-10	7.61948e-10	1	1	0
DNM1P47	0	broad.mit.edu	37	15	102292950	102292950	+	RNA	SNP	C	C	A			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr15:102292950C>A	ENST00000561463.1	+	0	996																											GCAGGCACAGCGGTGCGACGA	0.587000													3	10					6.4e-05	6.93333e-05	1	1	0
MED12	9968	broad.mit.edu	37	X	70350001	70350001	+	Missense_Mutation	SNP	T	T	A			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chrX:70350001T>A	ENST00000333646.6	+	28	4183	c.3984T>A	c.(3982-3984)caT>caA	p.H1328Q	MED12_ENST00000478889.1_Intron|MED12_ENST00000374102.1_Missense_Mutation_p.H1328Q|MED12_ENST00000374080.3_Missense_Mutation_p.H1328Q	NM_005120.2	NP_005111.2	Q93074	MED12_HUMAN	mediator complex subunit 12	1328					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			breast(6)|central_nervous_system(2)|endometrium(22)|kidney(5)|large_intestine(8)|lung(31)|ovary(2)|pancreas(1)|prostate(11)|skin(5)|soft_tissue(323)|upper_aerodigestive_tract(1)|urinary_tract(3)	420	Renal(35;0.156)					GCTATCCACATCGACTGCTGG	0.577000			"""M, S"""		uterine leiomyoma		Opitz-Kaveggia Syndrome						13	8					0	0	1	0	0
BAI2	576	broad.mit.edu	37	1	32204532	32204532	+	Silent	SNP	C	C	T			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr1:32204532C>T	ENST00000373658.3	-	16	2843	c.2502G>A	c.(2500-2502)ccG>ccA	p.P834P	BAI2_ENST00000398542.1_Silent_p.P767P|BAI2_ENST00000527361.1_Silent_p.P834P|BAI2_ENST00000398538.1_Silent_p.P822P|BAI2_ENST00000440175.2_Silent_p.P476P|BAI2_ENST00000257070.4_Silent_p.P834P|BAI2_ENST00000398556.3_Silent_p.P782P|BAI2_ENST00000398547.1_Silent_p.P767P|BAI2_ENST00000373655.2_Silent_p.P834P	NM_001703.2	NP_001694.2	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	834					negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			breast(5)|central_nervous_system(2)|endometrium(1)|large_intestine(7)|liver(2)|lung(24)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	55		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		TGACGGCCAGCGGGGGCCTGC	0.637000													27	41					0	0	1	0	0
PHIP	55023	broad.mit.edu	37	6	79675671	79675671	+	Missense_Mutation	SNP	T	T	C			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr6:79675671T>C	ENST00000275034.4	-	28	3475	c.3308A>G	c.(3307-3309)tAc>tGc	p.Y1103C	PHIP_ENST00000479165.1_5'UTR	NM_017934.5	NP_060404.3	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1103	Mediates interaction with IRS1 (By similarity).				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			NS(1)|breast(1)|central_nervous_system(2)|endometrium(10)|kidney(4)|large_intestine(20)|lung(20)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	68		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CCAAACATTGTAGCATTGAAA	0.373000													12	84					0	0	1	0	0
UNC79	57578	broad.mit.edu	37	14	94110024	94110024	+	Missense_Mutation	SNP	A	A	G			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr14:94110024A>G	ENST00000553484.1	+	36	6362	c.6208A>G	c.(6208-6210)Atc>Gtc	p.I2070V	UNC79_ENST00000256339.4_Missense_Mutation_p.I1871V|UNC79_ENST00000393151.2_Missense_Mutation_p.I2048V|UNC79_ENST00000555664.1_Missense_Mutation_p.I2009V			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	2048						integral to membrane				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						GCTGCTGGATATCATGCAGTC	0.458000													42	45					0	0	1	0	0
BAI2	576	broad.mit.edu	37	1	32204531	32204531	+	Silent	SNP	G	G	A			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr1:32204531G>A	ENST00000373658.3	-	16	2844	c.2503C>T	c.(2503-2505)Ctg>Ttg	p.L835L	BAI2_ENST00000398542.1_Silent_p.L768L|BAI2_ENST00000527361.1_Silent_p.L835L|BAI2_ENST00000398538.1_Silent_p.L823L|BAI2_ENST00000440175.2_Silent_p.L477L|BAI2_ENST00000257070.4_Silent_p.L835L|BAI2_ENST00000398556.3_Silent_p.L783L|BAI2_ENST00000398547.1_Silent_p.L768L|BAI2_ENST00000373655.2_Silent_p.L835L	NM_001703.2	NP_001694.2	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	835					negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			breast(5)|central_nervous_system(2)|endometrium(1)|large_intestine(7)|liver(2)|lung(24)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	55		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		GTGACGGCCAGCGGGGGCCTG	0.632000													27	42					0	0	1	0	0
RBM42	79171	broad.mit.edu	37	19	36124121	36124121	+	Silent	SNP	G	G	T			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr19:36124121G>T	ENST00000262633.4	+	6	756	c.651G>T	c.(649-651)ccG>ccT	p.P217P	RBM42_ENST00000592202.1_Silent_p.P163P|RBM42_ENST00000589871.1_Silent_p.P195P|RBM42_ENST00000360475.4_Silent_p.P188P|RBM42_ENST00000588161.1_Silent_p.P187P|RBM42_ENST00000586618.1_Intron|RBM42_ENST00000589559.1_Silent_p.P188P	NM_024321.3	NP_077297.2	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	217	Pro-rich.					cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)|endometrium(3)|large_intestine(7)|lung(9)|prostate(1)	21	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CAGGGCCCCCGCTGGGCTCCA	0.687000													22	31					8.04996e-18	9.96661e-18	1	1	0
EHF	26298	broad.mit.edu	37	11	34673125	34673125	+	Missense_Mutation	SNP	A	A	G			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr11:34673125A>G	ENST00000257831.3	+	5	564	c.443A>G	c.(442-444)tAt>tGt	p.Y148C	EHF_ENST00000450654.2_Missense_Mutation_p.Y148C|EHF_ENST00000531794.1_Missense_Mutation_p.Y170C|EHF_ENST00000530286.1_Missense_Mutation_p.Y148C|EHF_ENST00000533754.1_Missense_Mutation_p.Y148C	NM_012153.5	NP_036285.2	Q9NZC4	EHF_HUMAN	ets homologous factor	148					cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		NFIA/EHF(2)	autonomic_ganglia(1)|cervix(1)|endometrium(3)|kidney(3)|lung(8)|upper_aerodigestive_tract(1)	17		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			GACGAGAACTATTTATATGAC	0.428000													28	31					0	0	1	0	0
RAD54L2	23132	broad.mit.edu	37	3	51697226	51697226	+	Silent	SNP	G	G	C			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr3:51697226G>C	ENST00000409535.1	+	22	4319	c.4194G>C	c.(4192-4194)gcG>gcC	p.A1398A	RAD54L2_ENST00000296477.3_Silent_p.A1092A	NM_015106.2	NP_055921.2	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2 (S. cerevisiae)	1398						nucleus	ATP binding|DNA binding|helicase activity			NS(2)|breast(1)|cervix(2)|endometrium(4)|large_intestine(5)|liver(2)|lung(9)|ovary(4)|skin(2)	31				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GGATGTTTGCGCCTTTTCCTT	0.577000													49	32					0	0	1	0	0
MAPKAPK3	7867	broad.mit.edu	37	3	50681871	50681871	+	Missense_Mutation	SNP	A	A	G			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr3:50681871A>G	ENST00000446044.1	+	8	1132	c.536A>G	c.(535-537)aAa>aGa	p.K179R	MAPKAPK3_ENST00000357955.2_Missense_Mutation_p.K179R	NM_001243926.1	NP_001230855.1	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated protein kinase 3	179	Protein kinase.				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			central_nervous_system(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		TCTAAGGAGAAAGACGCAGTG	0.498000													3	90					0	0	1	0	0
PDP1	54704	broad.mit.edu	37	8	94934280	94934280	+	Missense_Mutation	SNP	C	C	G			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr8:94934280C>G	ENST00000396200.3	+	3	344	c.68C>G	c.(67-69)tCt>tGt	p.S23C	PDP1_ENST00000520728.1_5'UTR|PDP1_ENST00000297598.4_5'UTR|PDP1_ENST00000517764.1_5'UTR	NM_001161779.1	NP_001155251.1	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic subunit 1	0					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(4)|liver(1)|lung(5)|ovary(1)|pancreas(1)|skin(2)	18						CCACTGTTCTCTGATGCCATG	0.443000													13	30					0	0	1	0	0
AQP7	364	broad.mit.edu	37	9	33385614	33385614	+	Missense_Mutation	SNP	A	A	T	rs140995428	by1000genomes	TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr9:33385614A>T	ENST00000541274.1	-	5	830	c.381T>A	c.(379-381)agT>agA	p.S127R	AQP7_ENST00000537089.1_3'UTR|AQP7_ENST00000377425.4_Intron|AQP7_ENST00000539936.1_3'UTR			O14520	AQP7_HUMAN	aquaporin 7	0					excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		CCACAGAAAAACTCAAAGGAA	0.632000													4	41					0	0	1	0	0
FOXP2	93986	broad.mit.edu	37	7	114270000	114270000	+	Silent	SNP	G	G	A			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr7:114270000G>A	ENST00000393500.3	+	11	1132	c.312G>A	c.(310-312)caG>caA	p.Q104Q	FOXP2_ENST00000403559.4_Silent_p.Q196Q|FOXP2_ENST00000393494.2_Silent_p.Q179Q|FOXP2_ENST00000393489.3_Silent_p.Q87Q|FOXP2_ENST00000360232.4_Silent_p.Q179Q|FOXP2_ENST00000378237.3_Silent_p.Q179Q|AC020606.1_ENST00000580664.1_RNA|FOXP2_ENST00000350908.4_Silent_p.Q179Q|FOXP2_ENST00000390668.3_Silent_p.Q203Q|FOXP2_ENST00000393498.2_Silent_p.Q159Q|FOXP2_ENST00000393491.3_Silent_p.Q87Q|FOXP2_ENST00000408937.3_Silent_p.Q204Q			O15409	FOXP2_HUMAN	forkhead box P2	179	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	p.Q204Q(1)		breast(3)|endometrium(7)|kidney(4)|large_intestine(7)|lung(22)|ovary(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	52						agcaacaacagcagcagcagc	0.498000													3	39					0	0	1	0	0
AASDH	132949	broad.mit.edu	37	4	57220269	57220269	+	Frame_Shift_Del	DEL	A	A	-	rs148777026		TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr4:57220269delA	ENST00000205214.6	-	8	1499	c.1319delT	c.(1318-1320)tgfs	p.L440fs	AASDH_ENST00000602986.1_Frame_Shift_Del_p.L287fs|AASDH_ENST00000502617.1_Frame_Shift_Del_p.L440fs|AASDH_ENST00000513376.1_Frame_Shift_Del_p.L340fs|AASDH_ENST00000434343.2_Intron|AASDH_ENST00000451613.1_Frame_Shift_Del_p.L440fs	NM_181806.2	NP_861522.2	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	440					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding	p.?(1)		endometrium(2)|kidney(2)|large_intestine(8)|lung(17)|ovary(4)|prostate(3)|skin(2)|stomach(1)|urinary_tract(1)	40	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TTTTCGTCCCAAAAAAAAAAT	0.363													11	93	---	---	---	---					
HLA-V	0	broad.mit.edu	37	6	29761783	29761784	+	RNA	INS	-	-	G			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr6:29761783_29761784insG	ENST00000457107.1	+	0	1009_1010																											ggattggtgcaaagccctgctt	0.550													3	3	---	---	---	---					
SGK223	0	broad.mit.edu	37	8	8234868	8234869	+	In_Frame_Ins	INS	-	-	GCCGCT	rs59372311	by1000genomes	TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr8:8234868_8234869insGCCGCT	ENST00000520004.1	-	3	1314_1315	c.1050_1051insAGCGGC	c.(1048-1053)ggccag>ggAGCGGCccag	p.350_351GQ>GAAQ	SGK223_ENST00000330777.4_In_Frame_Ins_p.350_351GQ>GAAQ			Q86YV5	SG223_HUMAN		350							ATP binding|non-membrane spanning protein tyrosine kinase activity	p.G350_A351insSG(1)|p.G350_S351insSG(1)									GGGCTACTGGCGCCGCTGCCGC	0.653													2	4	---	---	---	---					
ANAPC7	51434	broad.mit.edu	37	12	110825686	110825686	+	Frame_Shift_Del	DEL	G	G	-			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr12:110825686delG	ENST00000455511.3	-	5	634	c.634delC	c.(634-636)ttfs	p.L212fs	ANAPC7_ENST00000450008.2_Frame_Shift_Del_p.L212fs|RP11-478C19.2_ENST00000550231.1_RNA	NM_016238.2	NP_057322.2	Q9UJX3	APC7_HUMAN	anaphase promoting complex subunit 7	212					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			breast(3)|endometrium(3)|kidney(1)|large_intestine(5)|lung(6)|prostate(1)	19						TTTACAGAAAGGGACAACAAG	0.473													11	16	---	---	---	---					
RP11-19N8.2	0	broad.mit.edu	37	16	32989896	32989897	+	RNA	DEL	TA	TA	-			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr16:32989896_32989897delTA	ENST00000567619.1	-	0	499																											TCCACTCCTGTATTCTCTCCAC	0.510													3	6	---	---	---	---					
NF1	4763	broad.mit.edu	37	17	29496993	29496993	+	Frame_Shift_Del	DEL	A	A	-			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chr17:29496993delA	ENST00000358273.4	+	5	947	c.564delA	c.(562-564)gcfs	p.A188fs	NF1_ENST00000431387.4_Frame_Shift_Del_p.A188fs|NF1_ENST00000356175.3_Frame_Shift_Del_p.A188fs	NM_001042492.2	NP_001035957.1	P21359	NF1_HUMAN	neurofibromin 1	188					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.0?(8)|p.?(4)	NF1/ACCN1(2)	autonomic_ganglia(12)|breast(11)|central_nervous_system(72)|cervix(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(59)|kidney(9)|large_intestine(39)|liver(1)|lung(80)|ovary(20)|pancreas(2)|prostate(2)|skin(8)|soft_tissue(249)|stomach(2)|thyroid(1)|upper_aerodigestive_tract(5)|urinary_tract(9)	599		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TGGATTGTGCAAAATTAAAAC	0.279			"""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)			10	7	---	---	---	---					
AMMECR1	9949	broad.mit.edu	37	X	109561207	109561209	+	In_Frame_Del	DEL	GGA	GGA	-			TCGA-RW-A688-01A-11D-A35D-08	TCGA-RW-A688-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	32002a4c-c9a3-4ab1-a6cc-695063869c70	5307bd9a-86ad-4e6d-966c-b36eb7876991	g.chrX:109561207_109561209delGGA	ENST00000262844.5	-	1	258_260	c.91_93delTCC	c.(91-93)del	p.S31del	AMMECR1_ENST00000372057.1_Intron|AMMECR1_ENST00000372059.2_In_Frame_Del_p.S31del	NM_015365.2	NP_056180.1	Q9Y4X0	AMER1_HUMAN	Alport syndrome, mental retardation, midface hypoplasia and elliptocytosis chromosomal region gene 1	31	Gly/Ser-rich.									large_intestine(1)|lung(4)|ovary(1)|stomach(1)	7						CGCTGCAGTGGGAGGAGGAGGAG	0.680													3	5	---	---	---	---					
