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
RP11-248G5.8	0	broad.mit.edu	37	13	52864028	52864028	+	RNA	SNP	C	C	T	rs138483057	by1000genomes	TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr13:52864028C>T	ENST00000451298.1	-	0	141				RP11-64P12.8_ENST00000606031.1_RNA																							TAGAATGATACTCCAAAGGAA	0.313000													3	31					0	0	1	0	0
ANXA5	308	broad.mit.edu	37	4	122590847	122590847	+	Missense_Mutation	SNP	T	T	G			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr4:122590847T>G	ENST00000296511.5	-	12	1098	c.813A>C	c.(811-813)agA>agC	p.R271S	ANXA5_ENST00000501272.2_Missense_Mutation_p.R211S|ANXA5_ENST00000515017.1_Missense_Mutation_p.R171S	NM_001154.3	NP_001145.1	P08758	ANXA5_HUMAN	annexin A5	271					anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			NS(1)|breast(1)|endometrium(2)|large_intestine(1)|lung(9)|ovary(1)	15						AAACCATGACTCTGATGAGGG	0.373000													32	75					0	0	1	0	0
H2BFWT	158983	broad.mit.edu	37	X	103267771	103267771	+	Silent	SNP	G	G	A	rs139759218		TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chrX:103267771G>A	ENST00000217926.5	-	1	488	c.462C>T	c.(460-462)gcC>gcT	p.A154A		NM_001002916.3	NP_001002916.2	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	154					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			breast(2)|endometrium(3)|large_intestine(2)|lung(7)|ovary(1)|upper_aerodigestive_tract(1)	16						CTTCGGACTCGGCGAGCTTGC	0.662000													9	24					0	0	1	0	0
DPY19L2P1	0	broad.mit.edu	37	7	35130010	35130010	+	RNA	SNP	T	T	C			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr7:35130010T>C	ENST00000436258.1	-	0	3359																											TCCTACTTCTTTGGCAGATTT	0.289000													6	239					0	0	1	0	0
MKI67	4288	broad.mit.edu	37	10	129904639	129904639	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr10:129904639C>T	ENST00000368654.3	-	13	5840	c.5465G>A	c.(5464-5466)cGt>cAt	p.R1822H	MKI67_ENST00000368653.3_Missense_Mutation_p.R1462H	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	1822	16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CTTTTCCTTACGAGTTTGTAG	0.473000													7	161					0	0	1	0	0
EIF3L	51386	broad.mit.edu	37	22	38273774	38273774	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr22:38273774C>T	ENST00000412331.2	+	11	1753	c.1171C>T	c.(1171-1173)Cgg>Tgg	p.R391W	EIF3L_ENST00000406934.1_Missense_Mutation_p.R293W|EIF3L_ENST00000381683.6_Missense_Mutation_p.R343W	NM_016091.3	NP_057175.1	Q9Y262	EIF3L_HUMAN	eukaryotic translation initiation factor 3, subunit L	391						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			kidney(2)|large_intestine(3)|lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	15						CCTCCAGCTGCGGGAGAAATA	0.512000													22	27					0	0	1	0	0
RET	5979	broad.mit.edu	37	10	43617416	43617416	+	Missense_Mutation	SNP	T	T	C	rs74799832		TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr10:43617416T>C	ENST00000355710.3	+	16	2985	c.2753T>C	c.(2752-2754)aTg>aCg	p.M918T	RET_ENST00000340058.5_Missense_Mutation_p.M918T	NM_020975.4	NP_066124.1	P07949	RET_HUMAN	ret proto-oncogene	918	Protein kinase.		M -> T (in RADYS, MEN2B and MTC; sporadic form; somatic mutation).		homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity	p.M918T(247)	CCDC6/RET(4)|KIF5B/RET(79)	NS(2)|adrenal_gland(26)|breast(5)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(7)|kidney(2)|large_intestine(14)|lung(27)|ovary(5)|prostate(3)|skin(1)|thyroid(504)|upper_aerodigestive_tract(1)|urinary_tract(1)	607		Ovarian(717;0.0423)			Sunitinib(DB01268)	GTTAAATGGATGGCAATTGAA	0.443000		1	"""T, Mis, N, F"""	"""H4, PRKAR1A, NCOA4, PCM1, GOLGA5, TRIM33, KTN1, TRIM27, HOOK3, KIF5B, CCDC6"""	"""medullary thyroid,  papillary thyroid, pheochromocytoma, NSCLC"""	"""medullary thyroid,  papillary thyroid, pheochromocytoma"""	Hirschsprung disease		Multiple Endocrine Neoplasia, type 2B;Multiple Endocrine Neoplasia, type 2A;Familial Medullary Thyroid Carcinoma				39	109					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29633900	29633900	+	Missense_Mutation	SNP	A	A	G	rs60081496	by1000genomes	TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr20:29633900A>G	ENST00000278882.3	+	9	919	c.539A>G	c.(538-540)gAa>gGa	p.E180G	FRG1B_ENST00000358464.4_Missense_Mutation_p.E180G														p.E180G(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						TAAACAAGAGAACCAAATTGA	0.264000													6	73					0	0	1	0	0
C19orf43	79002	broad.mit.edu	37	19	12842217	12842217	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr19:12842217C>T	ENST00000242784.4	-	2	481	c.364G>A	c.(364-366)Ggg>Agg	p.G122R	C19orf43_ENST00000588213.1_Missense_Mutation_p.R114Q|C19orf43_ENST00000592273.1_Intron	NM_024038.2	NP_076943.1	Q9BQ61	CS043_HUMAN	chromosome 19 open reading frame 43	122										endometrium(2)|large_intestine(2)	4						AGTTTGTTCCCGCCTCTGCGT	0.597000													4	46					0	0	1	0	0
VARS2	57176	broad.mit.edu	37	6	30893361	30893361	+	Silent	SNP	C	C	T			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr6:30893361C>T	ENST00000321897.5	+	27	3458	c.2826C>T	c.(2824-2826)ttC>ttT	p.F942F	VARS2_ENST00000476162.1_3'UTR|VARS2_ENST00000416670.2_Silent_p.F942F|VARS2_ENST00000542001.1_Silent_p.F802F|VARS2_ENST00000541562.1_Silent_p.F972F			Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	942					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(9)|lung(15)|ovary(3)|prostate(3)|skin(4)|urinary_tract(1)	46						AGGGCCTCTTCGAGGCCTTCT	0.667000													13	33					0	0	1	0	0
GLUD1P2	0	broad.mit.edu	37	10	48968566	48968566	+	RNA	SNP	A	A	G			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr10:48968566A>G	ENST00000594520.1	+	0	723																											ACAGGATAACAAACTGGAAAA	0.318000													4	26					0	0	1	0	0
GIPC2	54810	broad.mit.edu	37	1	78546456	78546456	+	Missense_Mutation	SNP	G	G	A			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr1:78546456G>A	ENST00000370759.3	+	2	531	c.338G>A	c.(337-339)gGa>gAa	p.G113E	GIPC2_ENST00000476882.1_3'UTR	NM_017655.4	NP_060125.4	Q8TF65	GIPC2_HUMAN	GIPC PDZ domain containing family, member 2	113						cytoplasm				endometrium(3)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(2)	20						CATGTGAAAGGAATCGAAAAA	0.343000													3	36					0	0	1	0	0
DAZAP2	9802	broad.mit.edu	37	12	51636117	51636117	+	Missense_Mutation	SNP	C	C	T			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr12:51636117C>T	ENST00000412716.3	+	4	998	c.382C>T	c.(382-384)Cca>Tca	p.P128S	DAZAP2_ENST00000604900.1_Intron|DAZAP2_ENST00000549732.2_Missense_Mutation_p.P96S|DAZAP2_ENST00000549555.1_Missense_Mutation_p.S102F|DAZAP2_ENST00000449723.3_Missense_Mutation_p.P106S|DAZAP2_ENST00000551534.1_3'UTR|DAZAP2_ENST00000425012.2_Intron|DAZAP2_ENST00000551313.1_Missense_Mutation_p.P68S|DAZAP2_ENST00000439799.2_Missense_Mutation_p.P46S			Q15038	DAZP2_HUMAN	DAZ associated protein 2	128	Pro-rich.						WW domain binding			haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)	6						CTTTCAGCCTCCACCTCCTGG	0.542000													88	235					0	0	1	0	0
ESPN	83715	broad.mit.edu	37	1	6512081	6512081	+	Frame_Shift_Del	DEL	C	C	-			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr1:6512081delC	ENST00000377828.1	+	10	2418	c.2250delC	c.(2248-2250)atfs	p.I750fs	ESPN_ENST00000475228.1_3'UTR|ESPN_ENST00000461727.1_Frame_Shift_Del_p.I184fs|ESPN_ENST00000416731.1_Frame_Shift_Del_p.I184fs	NM_031475.2	NP_113663.2	B1AK53	ESPN_HUMAN	espin	750					sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding			NS(1)|breast(2)|cervix(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|skin(1)	17	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		GCCGGCCCATCCCCGAGTGGA	0.672													2	4	---	---	---	---					
ECHDC2	55268	broad.mit.edu	37	1	53387326	53387326	+	Frame_Shift_Del	DEL	A	A	-			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr1:53387326delA	ENST00000371522.4	-	1	113	c.20delT	c.(19-21)ccfs	p.L8fs	ECHDC2_ENST00000358358.5_Frame_Shift_Del_p.L8fs|ECHDC2_ENST00000541281.1_5'UTR|ECHDC2_ENST00000536120.1_5'UTR	NM_001198961.1	NP_001185890.1	Q86YB7	ECHD2_HUMAN	enoyl CoA hydratase domain containing 2	8					fatty acid metabolic process	mitochondrion	lyase activity			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|urinary_tract(1)	12						GGGGCGCAGGAGGCACAGAAC	0.736													2	4	---	---	---	---					
AC027612.3	0	broad.mit.edu	37	2	91887905	91887906	+	RNA	INS	-	-	T			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr2:91887905_91887906insT	ENST00000436174.1	-	0	540																											GCTATTTTCCATTTTTTTTTTT	0.292													9	39	---	---	---	---					
TNS1	7145	broad.mit.edu	37	2	218712887	218712889	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr2:218712887_218712889delGCT	ENST00000171887.4	-	17	2428_2430	c.1976_1978delAGC	c.(1975-1980)cct>c	p.QP659del	TNS1_ENST00000419504.1_In_Frame_Del_p.QP659del|TNS1_ENST00000430930.1_In_Frame_Del_p.QP659del	NM_022648.4	NP_072174.3	Q9HBL0	TENS1_HUMAN	tensin 1	659	Gln-rich.					cytoplasm|cytoskeleton|focal adhesion	actin binding			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(23)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	79		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGTGGGCGAGgctgctgctgctg	0.660													4	6	---	---	---	---					
RP11-254I22.1	0	broad.mit.edu	37	5	95414786	95414787	+	RNA	INS	-	-	TAAAA	rs80243332	by1000genomes	TCGA-QT-A5XM-01A-11D-A35D-08	TCGA-QT-A5XM-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8b417a8d-25d1-49e0-8de4-d9e58e0af2c0	6e73178e-5d94-4332-b642-74b6c3da2990	g.chr5:95414786_95414787insTAAAA	ENST00000507997.1	+	0	87				CTD-2337A12.1_ENST00000511775.1_RNA|CTD-2337A12.1_ENST00000502645.2_RNA																							acccatgcacttaaagttaaaa	0.361													5	4	---	---	---	---					
