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
SAMD9L	219285	broad.mit.edu	37	7	92764069	92764069	+	Nonsense_Mutation	SNP	G	G	A	rs150070697	byFrequency	TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr7:92764069G>A	uc003umh.1	-	4	2432	c.1216C>T	c.(1216-1218)Cga>Tga	p.R406*	SAMD9L_uc003umj.1_Nonsense_Mutation_p.R406*|SAMD9L_uc003umi.1_Nonsense_Mutation_p.R406*|SAMD9L_uc010lfb.1_Nonsense_Mutation_p.R406*|SAMD9L_uc003umk.1_Nonsense_Mutation_p.R406*|SAMD9L_uc010lfc.1_Nonsense_Mutation_p.R406*|SAMD9L_uc010lfd.1_Nonsense_Mutation_p.R406*|SAMD9L_uc022ahh.1_Nonsense_Mutation_p.R406*	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	Homo sapiens sterile alpha motif domain containing 9-like (SAMD9L), mRNA.	406										central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(23)|liver(2)|lung(31)|ovary(5)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	88	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AGTGAGTCTCGGTTTCCTATG	0.353000													13	174					0	0	1	0	0
FRG1B	284802	broad.mit.edu	37	20	29625971	29625971	+	Missense_Mutation	SNP	C	C	A	rs145033899		TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr20:29625971C>A	uc010ztl.1	+	1	157	c.125C>A	c.(124-126)cCa>cAa	p.P42Q	FRG1B_uc002wvm.1_Non-coding_Transcript|FRG1B_uc010ztj.1_Non-coding_Transcript|FRG1B_uc010gdr.1_Non-coding_Transcript|FRG1B_uc010ztk.1_Intron					Homo sapiens FSHD region gene 1 family, member B (FRG1B), non-coding RNA.									p.A41T(1)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						CAATGGGAACCAGTCTTTCAA	0.328000													6	102					0	0	1	0	0
BC080605	0	broad.mit.edu	37	9	68413615	68413615	+	RNA	SNP	G	G	T			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr9:68413615G>T	uc004aex.3	+	0		c.170G>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		CTCTGGGGTTGACAGGAGCTC	0.617000													3	3					0	0	1	0	0
LOC283788	283788	broad.mit.edu	37	GL000219.1	83212	83212	+	Splice_Site	SNP	C	C	T			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chrGL000219.1:83212C>T	uc022brb.1	-	4	454	c.141_splice	c.e4+1	p.K47_splice	LOC283788_uc011mfq.2_Splice_Site					Homo sapiens FSHD region gene 1 pseudogene (LOC283788), non-coding RNA.																		GTCATCGTTACCTTGATCATT	0.348000													4	35					0	0	1	0	0
SYT13	57586	broad.mit.edu	37	11	45274253	45274253	+	Missense_Mutation	SNP	C	C	T			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr11:45274253C>T	uc001myq.2	-	3	691	c.565G>A	c.(565-567)Gga>Aga	p.G189R	SYT13_uc009yku.1_Missense_Mutation_p.G45R	NM_020826	NP_001234916	Q7L8C5	SYT13_HUMAN	Homo sapiens synaptotagmin XIII (SYT13), transcript variant 1, mRNA.	189	C2 1.					transport vesicle				breast(1)|large_intestine(3)|lung(16)|ovary(1)|skin(2)	23						TCACAGCCTCCGTCGTGGTTG	0.602000											OREG0020928	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	79					0	0	1	0	0
STEAP2	261729	broad.mit.edu	37	7	89856643	89856643	+	Missense_Mutation	SNP	A	A	G	rs138124501	byFrequency	TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr7:89856643A>G	uc010len.3	+	3	1357	c.851A>G	c.(850-852)tAc>tGc	p.Y284C	STEAP2_uc003ujy.2_Missense_Mutation_p.Y326C|STEAP2_uc003uka.3_Missense_Mutation_p.Y284C|STEAP2_uc003ujz.3_Missense_Mutation_p.Y284C|STEAP2_uc003ukc.3_Missense_Mutation_p.Y284C|STEAP2_uc003ukb.3_Missense_Mutation_p.Y284C|STEAP2_uc003ukd.3_Missense_Mutation_p.Y284C	NM_001244944	NP_001231873	Q8NFT2	STEA2_HUMAN	Homo sapiens STEAP family member 2, metalloreductase (STEAP2), transcript variant 4, mRNA.	284	Ferric oxidoreductase.				Golgi to plasma membrane transport|electron transport chain|endocytosis|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(1)	15	all_hematologic(106;0.112)					CAACTTTATTACGGCACCAAG	0.408000													8	85					0	0	1	0	0
COL5A3	50509	broad.mit.edu	37	19	10088375	10088375	+	Silent	SNP	G	G	T			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr19:10088375G>T	uc002mmq.1	-	41	3107	c.3021C>A	c.(3019-3021)ggC>ggA	p.G1007G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	Homo sapiens collagen, type V, alpha 3 (COL5A3), mRNA.	1007	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			NS(2)|breast(3)|central_nervous_system(2)|endometrium(11)|kidney(23)|large_intestine(12)|liver(2)|lung(35)|ovary(8)|prostate(5)|skin(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	116			Epithelial(33;7.11e-05)			CACCAGGGGAGCCCTGAGAAC	0.572000													4	16					0	0	1	0	0
RPRD2	23248	broad.mit.edu	37	1	150445617	150445617	+	Missense_Mutation	SNP	C	C	T			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr1:150445617C>T	uc009wlr.3	+	10	4394	c.4193C>T	c.(4192-4194)cCc>cTc	p.P1398L	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.4_Missense_Mutation_p.P1372L	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Homo sapiens regulation of nuclear pre-mRNA domain containing 2 (RPRD2), mRNA.	1398	Pro-rich.						protein binding			central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						AGTGGCCCCCCCTTGGGTCCC	0.612000													4	92					0	0	1	0	0
FLNB	2317	broad.mit.edu	37	3	58062900	58062900	+	Silent	SNP	G	G	A			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr3:58062900G>A	uc003djj.2	+	1	585	c.420G>A	c.(418-420)acG>acA	p.T140T	FLNB_uc010hne.2_Silent_p.T140T|FLNB_uc003djk.2_Silent_p.T140T|FLNB_uc010hnf.2_Silent_p.T140T|FLNB_uc003djl.2_5'Flank|FLNB_uc003djm.2_5'Flank	NM_001457	NP_001448	O75369	FLNB_HUMAN	Homo sapiens filamin B, beta (FLNB), transcript variant 2, mRNA.	140	Actin-binding.|CH 2.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			NS(1)|breast(13)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(23)|liver(2)|lung(38)|ovary(6)|prostate(3)|skin(8)|upper_aerodigestive_tract(3)|urinary_tract(5)	120				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		AGAAGCAGACGCCAAAGCAGA	0.557000													4	76					0	0	1	0	0
FGF16	8823	broad.mit.edu	37	X	76711785	76711785	+	Missense_Mutation	SNP	A	A	T			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chrX:76711785A>T	uc011mqp.2	+	1	123	c.123A>T	c.(121-123)gaA>gaT	p.E41D		NM_003868	NP_003859	O43320	FGF16_HUMAN	Homo sapiens fibroblast growth factor 16 (FGF16), mRNA.	132					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|metabolic process|organ morphogenesis|response to temperature stimulus	extracellular space	growth factor activity			NS(1)|breast(1)|lung(2)	4						TCACACGTGAATGTGTTTTCC	0.423000													4	70					0	0	1	0	0
CASC5	57082	broad.mit.edu	37	15	40917081	40917081	+	Missense_Mutation	SNP	G	G	A			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chr15:40917081G>A	uc010bbs.1	+	10	4858	c.4697G>A	c.(4696-4698)gGa>gAa	p.G1566E	CASC5_uc010ucq.1_Missense_Mutation_p.G1390E|CASC5_uc001zme.3_Missense_Mutation_p.G1540E|CASC5_uc010bbt.1_Missense_Mutation_p.G1540E	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	Homo sapiens cancer susceptibility candidate 5 (CASC5), transcript variant 1, mRNA.	1566					CenH3-containing nucleosome assembly at centromere|acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GTCAATGCTGGAGAAGCACCA	0.343000													4	38					0	0	1	0	0
SRPX2	27286	broad.mit.edu	37	X	99917332	99917332	+	Missense_Mutation	SNP	G	G	A			TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chrX:99917332G>A	uc004egb.3	+	3	803	c.323G>A	c.(322-324)aGc>aAc	p.S108N		NM_014467	NP_055282	O60687	SRPX2_HUMAN	Homo sapiens sushi-repeat containing protein, X-linked 2 (SRPX2), mRNA.	108	Sushi 1.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(10)|ovary(2)|upper_aerodigestive_tract(1)	19						TGCCTGCCAAGCCGTCGTTGG	0.557000													6	91					0	0	1	0	0
NUDT11	55190	broad.mit.edu	37	X	51239296	51239309	+	Translation_Start_Site	DEL	TCCTCGAGGCAGCC	-	-	rs78182391		TCGA-EJ-A46E-01A-31D-A257-08	TCGA-EJ-A46E-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3471f90f-e293-45d1-a6cf-4927be485fd9	757ae720-46cc-4388-a24f-5c8ab52e12f4	g.chrX:51239296_51239309delTCCTCGAGGCAGCC	uc010njt.3	-	0						NM_018159	NP_060629	Q96G61	NUD11_HUMAN	Homo sapiens nudix (nucleoside diphosphate linked moiety X)-type motif 11 (NUDT11), mRNA.							cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding	p.?(5)		breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|upper_aerodigestive_tract(2)	9	Ovarian(276;0.236)					TTGCACTTCATCCTCGAGGCAGCCTCCTCGAGGC	0.692										HNSCC(48;0.14)			6	7	---	---	---	---					
