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
RP11-204M4.2	0	broad.mit.edu	37	9	41962620	41962620	+	RNA	SNP	G	G	A	rs137865170	by1000genomes	TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr9:41962620G>A	ENST00000454645.1	-	0	884					NR_003670.1																						TCCTCTTACAGGAATCCCCTT	0.363000													4	23					0	0	1	0	0
TMEM257	9142	broad.mit.edu	37	X	144909459	144909459	+	Missense_Mutation	SNP	G	G	T	rs144670117		TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chrX:144909459G>T	ENST00000408967.2	+	1	532	c.264G>T	c.(262-264)atG>atT	p.M88I		NM_004709.2	NP_004700.1			transmembrane protein 257																		ACAGCAAAATGGTTCCAGCCT	0.393000													4	21					0.000602214	0.000635671	1	1	0
MED12L	116931	broad.mit.edu	37	3	151107898	151107898	+	Silent	SNP	C	C	T			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr3:151107898C>T	ENST00000474524.1	+	36	5516	c.5478C>T	c.(5476-5478)ttC>ttT	p.F1826F	MED12L_ENST00000273432.4_Silent_p.F1686F	NM_053002.4	NP_443728.3	Q86YW9	MD12L_HUMAN	mediator complex subunit 12-like	1826					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				NS(1)|breast(3)|central_nervous_system(3)|cervix(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(27)|lung(50)|ovary(6)|prostate(3)|skin(4)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	128			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCGGCTTTTTCCTTCAGAACC	0.493000													35	126					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29625934	29625934	+	Missense_Mutation	SNP	C	C	T			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr20:29625934C>T	ENST00000278882.3	+	5	558	c.178C>T	c.(178-180)Cat>Tat	p.H60Y	FRG1B_ENST00000439954.2_Missense_Mutation_p.H65Y|FRG1B_ENST00000358464.4_Missense_Mutation_p.H60Y																endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						ACTTGTTGGGCATTCAGATGC	0.338000													4	42					0	0	1	0	0
AGTPBP1	23287	broad.mit.edu	37	9	88207522	88207522	+	Missense_Mutation	SNP	C	C	A			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr9:88207522C>A	ENST00000357081.3	-	19	2665	c.2521G>T	c.(2521-2523)Gtt>Ttt	p.V841F	AGTPBP1_ENST00000337006.4_3'UTR|AGTPBP1_ENST00000376083.3_Missense_Mutation_p.V801F|AGTPBP1_ENST00000376109.3_Missense_Mutation_p.V853F|AGTPBP1_ENST00000432218.1_Intron			Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	841					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			NS(1)|breast(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(12)|lung(12)|ovary(5)|skin(2)|urinary_tract(3)	44						AAGTAGCAAACATCATCTTTA	0.313000													4	52					1	1	1	1	0
BCHE	590	broad.mit.edu	37	3	165548145	165548145	+	Missense_Mutation	SNP	C	C	G			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr3:165548145C>G	ENST00000264381.3	-	2	843	c.677G>C	c.(676-678)aGt>aCt	p.S226T	BCHE_ENST00000540653.1_Intron	NM_000055.2	NP_000046.1	P06276	CHLE_HUMAN	butyrylcholinesterase	226			S -> G (in BChE deficiency; enzymatically inactive in the plasma).		choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			breast(1)|endometrium(2)|kidney(1)|large_intestine(10)|lung(34)|ovary(4)|pancreas(2)|stomach(1)	55					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TGCTCCTGCACTTTCTCCAAA	0.428000													14	28					0	0	1	0	0
MED12L	116931	broad.mit.edu	37	3	151107899	151107899	+	Missense_Mutation	SNP	C	C	A			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr3:151107899C>A	ENST00000474524.1	+	36	5517	c.5479C>A	c.(5479-5481)Ctt>Att	p.L1827I	MED12L_ENST00000273432.4_Missense_Mutation_p.L1687I	NM_053002.4	NP_443728.3	Q86YW9	MD12L_HUMAN	mediator complex subunit 12-like	1827					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				NS(1)|breast(3)|central_nervous_system(3)|cervix(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(27)|lung(50)|ovary(6)|prostate(3)|skin(4)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	128			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CGGCTTTTTCCTTCAGAACCA	0.488000													36	127					3.28013e-08	3.77712e-08	1	1	0
ZC3H13	23091	broad.mit.edu	37	13	46549612	46549612	+	Silent	SNP	C	C	T	rs142530497	by1000genomes	TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr13:46549612C>T	ENST00000242848.4	-	12	2622	c.2274G>A	c.(2272-2274)agG>agA	p.R758R	ZC3H13_ENST00000282007.3_Silent_p.R758R			Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	758	Arg/Glu-rich.						nucleic acid binding|zinc ion binding	p.R758fs*104(1)		cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(27)|lung(25)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	79		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		gctctctctccctctctctct	0.532000													4	29					0	0	1	0	0
DGCR14	8220	broad.mit.edu	37	22	19132143	19132143	+	Missense_Mutation	SNP	G	G	A			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr22:19132143G>A	ENST00000252137.6	-	1	54	c.11C>T	c.(10-12)cCg>cTg	p.P4L		NM_022719.2	NP_073210.1	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region gene 14	4					nervous system development	catalytic step 2 spliceosome				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|skin(1)	16	Colorectal(54;0.0993)					TGATGCGCCCGGCGTCTCCAT	0.692000													8	6					0	0	1	0	0
FRMPD1	22844	broad.mit.edu	37	9	37740357	37740357	+	Missense_Mutation	SNP	C	C	T			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr9:37740357C>T	ENST00000539465.1	+	15	2425	c.1832C>T	c.(1831-1833)gCt>gTt	p.A611V	FRMPD1_ENST00000377765.3_Missense_Mutation_p.A611V|RP11-613M10.9_ENST00000540557.1_Intron|FRMPD1_ENST00000536622.1_Missense_Mutation_p.A433V|FRMPD1_ENST00000541302.1_Missense_Mutation_p.A480V			Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	611						cytoskeleton|cytosol|plasma membrane				NS(3)|breast(2)|central_nervous_system(2)|endometrium(5)|kidney(4)|large_intestine(22)|lung(34)|ovary(5)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	93				GBM - Glioblastoma multiforme(29;0.00655)		TCCATGGACGCTCTGGAAGAG	0.612000													9	26					0	0	1	0	0
AMPD2	271	broad.mit.edu	37	1	110170707	110170707	+	Silent	SNP	G	G	T			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr1:110170707G>T	ENST00000256578.3	+	10	1605	c.1245G>T	c.(1243-1245)gtG>gtT	p.V415V	AMPD2_ENST00000342115.4_Silent_p.V334V|AMPD2_ENST00000528667.1_Silent_p.V415V|AMPD2_ENST00000393688.3_Silent_p.V296V|AMPD2_ENST00000358729.4_Silent_p.V340V|AMPD2_ENST00000528454.1_Silent_p.V297V|AMPD2_ENST00000526301.1_3'UTR	NM_004037.7	NP_004028.3	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2	415					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			breast(1)|large_intestine(3)|ovary(2)|skin(1)	7		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		CATTCCAGGTGGACACCCACA	0.597000													3	33					0.115264	0.118379	1	1	0
RFTN1	23180	broad.mit.edu	37	3	16368297	16368297	+	Silent	SNP	G	G	A	rs139132308		TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr3:16368297G>A	ENST00000334133.4	-	8	1505	c.1233C>T	c.(1231-1233)ccC>ccT	p.P411P	RFTN1_ENST00000432519.1_Silent_p.P375P|OXNAD1_ENST00000606098.1_Intron|OXNAD1_ENST00000605932.1_Intron|OXNAD1_ENST00000544043.1_Intron|RFTN1_ENST00000483671.1_5'UTR|OXNAD1_ENST00000435829.2_Intron	NM_015150.1	NP_055965.1	Q14699	RFTN1_HUMAN	raftlin, lipid raft linker 1	411						plasma membrane				central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(8)|lung(8)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	38						TCTTGACGACGGGAGTTGGTA	0.512000													3	29					0	0	1	0	0
SETD7	80854	broad.mit.edu	37	4	140454300	140454300	+	Missense_Mutation	SNP	G	G	C	rs145857649	by1000genomes	TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr4:140454300G>C	ENST00000404104.3	-	3	1022	c.391C>G	c.(391-393)Cac>Gac	p.H131D	SETD7_ENST00000406354.1_3'UTR|SETD7_ENST00000506866.2_Intron|SETD7_ENST00000274031.3_Intron			Q8WTS6	SETD7_HUMAN	SET domain containing (lysine methyltransferase) 7	0					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(1)|ovary(1)|upper_aerodigestive_tract(1)	8	all_hematologic(180;0.156)					CCAGCAGAGTGAACAGTCACA	0.428000													11	21					0	0	1	0	0
OR6C75	390323	broad.mit.edu	37	12	55759273	55759273	+	Missense_Mutation	SNP	C	C	A			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr12:55759273C>A	ENST00000343399.3	+	1	379	c.379C>A	c.(379-381)Cct>Act	p.P127T		NM_001005497.1	NP_001005497.1	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C, member 75	127					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			endometrium(2)|large_intestine(5)|lung(11)|ovary(3)|skin(2)|upper_aerodigestive_tract(2)	25						CATCTGCAAACCTCTTCATTA	0.468000													11	21					7.03913e-09	8.35896e-09	1	1	0
TIAM2	26230	broad.mit.edu	37	6	155569295	155569295	+	Missense_Mutation	SNP	G	G	A			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr6:155569295G>A	ENST00000461783.3	+	22	5087	c.3814G>A	c.(3814-3816)Gag>Aag	p.E1272K	TIAM2_ENST00000528391.2_Missense_Mutation_p.E608K|TIAM2_ENST00000360366.4_Missense_Mutation_p.E1296K|TIAM2_ENST00000367174.2_Missense_Mutation_p.E648K|TIAM2_ENST00000318981.5_Missense_Mutation_p.E1272K|TIAM2_ENST00000529824.2_Missense_Mutation_p.E1272K|TIAM2_ENST00000275246.7_Missense_Mutation_p.E197K|TIAM2_ENST00000456877.2_Missense_Mutation_p.E584K|TIAM2_ENST00000456144.1_Missense_Mutation_p.E1272K			Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1272	DH.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(20)|lung(21)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)	65		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GGAGAGCGAGGAGCACTACCA	0.687000											OREG0017745	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	33					0	0	1	0	0
SUOX	6821	broad.mit.edu	37	12	56397430	56397430	+	Missense_Mutation	SNP	C	C	T			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr12:56397430C>T	ENST00000394109.3	+	3	981	c.257C>T	c.(256-258)aCt>aTt	p.T86I	SUOX_ENST00000394115.2_Missense_Mutation_p.T86I|SUOX_ENST00000548274.1_Missense_Mutation_p.T86I|SUOX_ENST00000550478.1_3'UTR|SUOX_ENST00000551841.2_Missense_Mutation_p.T86I|SUOX_ENST00000266971.3_Missense_Mutation_p.T86I|SUOX_ENST00000356124.4_Missense_Mutation_p.T86I			P51687	SUOX_HUMAN	sulfite oxidase	86	Cytochrome b5 heme-binding.					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(6)	15			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			CACATATACACTAAGGAGGAA	0.488000													13	41					0	0	1	0	0
PKHD1	5314	broad.mit.edu	37	6	51640611	51640611	+	Missense_Mutation	SNP	G	G	T			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr6:51640611G>T	ENST00000371117.3	-	54	8824	c.8549C>A	c.(8548-8550)aCa>aAa	p.T2850K	PKHD1_ENST00000340994.4_Missense_Mutation_p.T2850K	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)	2850	G8 2.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					CTTACCAATTGTTCCTGGGTC	0.338000													12	26					2.27111e-07	2.5383e-07	1	1	0
PTPN14	5784	broad.mit.edu	37	1	214557049	214557051	+	In_Frame_Del	DEL	CCT	CCT	-			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr1:214557049_214557051delCCT	ENST00000366956.5	-	13	2341_2343	c.2147_2149delAGG	c.(2146-2151)gct>g	p.EA716del	PTPN14_ENST00000543945.1_3'UTR	NM_005401.4	NP_005392.2	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type 14	716	Poly-Glu.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding	p.E716delE(1)		NS(2)|breast(3)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(9)|liver(3)|lung(21)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	58				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GATTCTGGAGCCTCCTCCTCCTC	0.626													9	59	---	---	---	---					
RP11-796E2.4	0	broad.mit.edu	37	12	92562207	92562207	+	RNA	DEL	C	C	-			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr12:92562207delC	ENST00000499685.2	+	0	164																											ATGAGAGGCACCCCATATGTG	0.383													2	4	---	---	---	---					
IGHV3-9	0	broad.mit.edu	37	14	106552636	106552637	+	RNA	INS	-	-	CACTGTTTCTCT			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr14:106552636_106552637insCACTGTTTCTCT	ENST00000390600.2	-	0	126																											CCACACAAATCCACTCATGTCC	0.490													3	3	---	---	---	---					
USP6	9098	broad.mit.edu	37	17	5076261	5076262	+	Frame_Shift_Del	DEL	TA	TA	-			TCGA-CE-A481-01A-21D-A23U-08	TCGA-CE-A481-10A-01D-A23U-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1d410fec-2a49-4f9d-a430-c8680f20d3e8	168556c4-5ce6-4d1d-aa78-4be965e6225f	g.chr17:5076261_5076262delTA	ENST00000574788.1	+	38	6439_6440	c.4209_4210delTA	c.(4207-4212)tctgfs	p.SM1403fs	USP6_ENST00000332776.4_3'UTR|USP6_ENST00000304328.5_Frame_Shift_Del_p.SM1086fs|USP6_ENST00000250066.6_Frame_Shift_Del_p.SM1403fs			P35125	UBP6_HUMAN	ubiquitin specific peptidase 6 (Tre-2 oncogene)	1403					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(4)|lung(15)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	34						AAAAGTACTCTATGTTACAGTA	0.450			T	"""COL1A1, CDH11, ZNF9, OMD"""	aneurysmal bone cysts								12	29	---	---	---	---