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
FSD1	79187	broad.mit.edu	37	19	4311908	4311908	+	Missense_Mutation	SNP	G	G	A			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr19:4311908G>A	ENST00000221856.6	+	7	707	c.560G>A	c.(559-561)cGc>cAc	p.R187H	FSD1_ENST00000597590.1_Missense_Mutation_p.R187H|FSD1_ENST00000598010.1_3'UTR	NM_024333.2	NP_077309.1	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing 1	187	Fibronectin type-III.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus		p.R187L(1)		breast(2)|cervix(1)|endometrium(1)|large_intestine(4)|liver(1)|lung(8)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	21				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGGTGTGGCGCATGCCGGAT	0.642000													4	62					0	0	1	0	0
CLIP1	6249	broad.mit.edu	37	12	122825338	122825338	+	Missense_Mutation	SNP	T	T	C			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr12:122825338T>C	ENST00000358808.2	-	10	2534	c.2380A>G	c.(2380-2382)Aaa>Gaa	p.K794E	CLIP1_ENST00000545889.1_Intron|CLIP1_ENST00000302528.7_Missense_Mutation_p.K794E|CLIP1_ENST00000361654.4_Intron|CLIP1_ENST00000540338.1_Missense_Mutation_p.K805E|CLIP1_ENST00000537178.1_Missense_Mutation_p.K759E	NM_001247997.1|NM_002956.2	NP_001234926.1|NP_002947.1	P30622	CLIP1_HUMAN	CAP-GLY domain containing linker protein 1	805					mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			NS(1)|breast(5)|endometrium(4)|kidney(5)|large_intestine(16)|liver(1)|lung(21)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	60	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TCTAAATGTTTAATCTGTTTC	0.368000													4	79					0	0	1	0	0
COLGALT2	23127	broad.mit.edu	37	1	183933121	183933121	+	Missense_Mutation	SNP	T	T	C			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr1:183933121T>C	ENST00000361927.4	-	6	1237	c.866A>G	c.(865-867)tAt>tGt	p.Y289C	COLGALT2_ENST00000546159.1_Missense_Mutation_p.Y289C|COLGALT2_ENST00000367520.3_Missense_Mutation_p.Y26C	NM_015101.2	NP_055916.1			collagen beta(1-O)galactosyltransferase 2																		CAGGTAGCCATAGTGCTCTCT	0.517000													9	29					0	0	1	0	0
METAP1D	254042	broad.mit.edu	37	2	172928475	172928475	+	Missense_Mutation	SNP	G	G	C			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr2:172928475G>C	ENST00000315796.4	+	3	622	c.235G>C	c.(235-237)Gta>Cta	p.V79L	METAP1D_ENST00000488581.1_3'UTR	NM_199227.1	NP_954697.1	Q6UB28	AMP1D_HUMAN	methionyl aminopeptidase type 1D (mitochondrial)	79					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis	mitochondrion	aminopeptidase activity|metal ion binding|metalloexopeptidase activity			NS(1)|endometrium(1)|large_intestine(2)|lung(3)|skin(1)	8						GACAGGCATTGTACCAGACTG	0.483000													3	31					0	0	1	0	0
TPTE2P6	374491	broad.mit.edu	37	13	25161438	25161438	+	RNA	SNP	T	T	A	rs3869320	by1000genomes	TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr13:25161438T>A	ENST00000453498.1	+	0	962																											CTCTTTATAATAAGATTCATT	0.378000													3	45					0	0	1	0	0
KRTAP4-8	728224	broad.mit.edu	37	17	39254054	39254054	+	Missense_Mutation	SNP	A	A	T	rs76270529	by1000genomes	TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	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													3	28					0	0	1	0	0
MED13L	23389	broad.mit.edu	37	12	116413346	116413346	+	Silent	SNP	G	G	A	rs139063441		TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr12:116413346G>A	ENST00000281928.3	-	24	5768	c.5562C>T	c.(5560-5562)tgC>tgT	p.C1854C		NM_015335.4	NP_056150.1	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1854					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					NS(2)|breast(1)|endometrium(9)|kidney(3)|large_intestine(18)|lung(34)|ovary(4)|prostate(4)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	85	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		TATTTACAACGCAGGTCTCTA	0.418000													3	44					0	0	1	0	0
SLC7A5	8140	broad.mit.edu	37	16	87866625	87866625	+	Missense_Mutation	SNP	G	G	A	rs144253961		TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr16:87866625G>A	ENST00000261622.4	-	10	1540	c.1475C>T	c.(1474-1476)aCg>aTg	p.T492M	SLC7A5_ENST00000565644.1_Missense_Mutation_p.T226M	NM_003486.5	NP_003477.4	Q01650	LAT1_HUMAN	solute carrier family 7 (amino acid transporter light chain, L system), member 5	492					blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding			endometrium(3)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	10				BRCA - Breast invasive adenocarcinoma(80;0.049)		CAGGACGGTCGTGGAGACTGT	0.647000													4	119					0	0	1	0	0
IGDCC4	57722	broad.mit.edu	37	15	65678300	65678300	+	Missense_Mutation	SNP	C	C	G			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr15:65678300C>G	ENST00000352385.2	-	18	3258	c.3049G>C	c.(3049-3051)Gaa>Caa	p.E1017Q		NM_020962.1	NP_066013.1	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member 4	1017						integral to membrane|plasma membrane				NS(1)|central_nervous_system(1)|endometrium(1)|large_intestine(7)|lung(24)|ovary(1)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)	44						GACTCCAATTCATGGGCAGCT	0.677000											OREG0023195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	30					0	0	1	0	0
OGDHL	55753	broad.mit.edu	37	10	50946031	50946031	+	Missense_Mutation	SNP	C	C	T			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr10:50946031C>T	ENST00000374103.4	-	19	2564	c.2479G>A	c.(2479-2481)Gtg>Atg	p.V827M	OGDHL_ENST00000432695.1_Missense_Mutation_p.V618M|OGDHL_ENST00000490844.1_5'UTR|OGDHL_ENST00000419399.1_Missense_Mutation_p.V770M	NM_018245.2	NP_060715.2	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like	827					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(14)|lung(30)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|soft_tissue(1)|upper_aerodigestive_tract(1)	61						CGGCGCAGCACGTGGAAGTAG	0.652000													5	177					0	0	1	0	0
C6orf211	79624	broad.mit.edu	37	6	151790032	151790032	+	Silent	SNP	G	G	A			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr6:151790032G>A	ENST00000367294.3	+	5	1372	c.1113G>A	c.(1111-1113)agG>agA	p.R371R	C6orf211_ENST00000545879.1_Silent_p.R252R	NM_024573.1	NP_078849.1	Q9H993	CF211_HUMAN	chromosome 6 open reading frame 211	371							protein binding			breast(1)|cervix(1)|endometrium(1)|large_intestine(5)|lung(7)	15			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		TGAATTACAGGAAGTTGACAG	0.413000													18	60					0	0	1	0	0
PREB	10113	broad.mit.edu	37	2	27355237	27355237	+	Nonsense_Mutation	SNP	G	G	A			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr2:27355237G>A	ENST00000260643.2	-	6	1040	c.787C>T	c.(787-789)Cga>Tga	p.R263*	PREB_ENST00000406567.3_Intron	NM_013388.4	NP_037520.1	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding	263					COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(5)|ovary(2)|skin(1)	14	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGAAGAGTCGCAGGCCAGCA	0.627000													6	30					0	0	1	0	0
TBXA2R	6915	broad.mit.edu	37	19	3600626	3600626	+	Missense_Mutation	SNP	G	G	A			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr19:3600626G>A	ENST00000375190.4	-	2	400	c.7C>T	c.(7-9)Ccc>Tcc	p.P3S	TBXA2R_ENST00000411851.3_Missense_Mutation_p.P3S|TBXA2R_ENST00000589966.1_Missense_Mutation_p.P3S	NM_001060.5|NM_201636.2	NP_001051.1|NP_963998.2	P21731	TA2R_HUMAN	thromboxane A2 receptor	3					platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity			kidney(1)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	8		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CTGCCGTTGGGCCACATGGCT	0.657000													3	17					0	0	1	0	0
HAPLN2	60484	broad.mit.edu	37	1	156593628	156593628	+	Frame_Shift_Del	DEL	C	C	-			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr1:156593628delC	ENST00000255039.1	+	4	522	c.115delC	c.(115-117)ccfs	p.P40fs		NM_021817.2	NP_068589.1	Q9GZV7	HPLN2_HUMAN	hyaluronan and proteoglycan link protein 2	40	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			NS(1)|endometrium(2)|large_intestine(1)|lung(1)|skin(1)|urinary_tract(1)	7	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CTACCTCCTGCCCCCCATCCA	0.677													3	6	---	---	---	---					
SNX29P2	440352	broad.mit.edu	37	16	29339899	29339899	+	RNA	DEL	C	C	-			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr16:29339899delC	ENST00000398878.3	+	0	887																											CTCCACATCGCCAAGGTGCCA	0.537													2	4	---	---	---	---					
NECAB3	63941	broad.mit.edu	37	20	32247350	32247350	+	Frame_Shift_Del	DEL	G	G	-			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr20:32247350delG	ENST00000246190.6	-	8	887	c.832delC	c.(832-834)ggfs	p.R278fs	NECAB3_ENST00000606525.1_5'UTR|NECAB3_ENST00000375238.4_Frame_Shift_Del_p.R244fs	NM_031232.3	NP_112509.3	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	278					antibiotic biosynthetic process|protein metabolic process|protein secretion|regulation of amyloid precursor protein biosynthetic process	endoplasmic reticulum membrane|Golgi cis cisterna|nucleus	calcium ion binding|oxidoreductase activity|protein binding			large_intestine(3)|lung(5)|skin(2)	10						GGTTCCAGCCGGGGGGCCTGT	0.697													2	4	---	---	---	---					
NECAB3	63941	broad.mit.edu	37	20	32247387	32247387	+	Frame_Shift_Del	DEL	C	C	-			TCGA-SP-A6QI-01A-12D-A35I-08	TCGA-SP-A6QI-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	94725038-c898-4b46-9824-db0017cb2bf3	9fc1e083-c82d-4fda-96e7-7374254e8d0c	g.chr20:32247387delC	ENST00000246190.6	-	8	850	c.795delG	c.(793-795)tgfs	p.W265fs	NECAB3_ENST00000606525.1_Intron|NECAB3_ENST00000375238.4_Intron	NM_031232.3	NP_112509.3	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	265					antibiotic biosynthetic process|protein metabolic process|protein secretion|regulation of amyloid precursor protein biosynthetic process	endoplasmic reticulum membrane|Golgi cis cisterna|nucleus	calcium ion binding|oxidoreductase activity|protein binding			large_intestine(3)|lung(5)|skin(2)	10						GGCCGGGCCTCCAGCATGGGC	0.687													2	4	---	---	---	---