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
OBSCN	84033	broad.mit.edu	37	1	228505606	228505606	+	Silent	SNP	G	G	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr1:228505606G>A	ENST00000570156.2	+	64	16808	c.16734G>A	c.(16732-16734)aaG>aaA	p.K5578K	OBSCN_ENST00000284548.11_Silent_p.K4621K|OBSCN_ENST00000366709.4_Silent_p.K1740K|OBSCN_ENST00000422127.1_Silent_p.K4621K|OBSCN_ENST00000366707.4_Silent_p.K2255K	NM_001271223.2	NP_001258152.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	4621					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				AGCCACCGAAGCCTGTGCCTC	0.662000													5	9					0	0	1	0	0
ANKRD30BP2	0	broad.mit.edu	37	21	14414855	14414855	+	RNA	SNP	A	A	G	rs141732548	by1000genomes	TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr21:14414855A>G	ENST00000507941.1	+	0	95																											GCCAATGGCCATGCAGAAGTA	0.448000													4	44					0	0	1	0	0
FGD2	221472	broad.mit.edu	37	6	36995325	36995325	+	Missense_Mutation	SNP	G	G	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr6:36995325G>A	ENST00000274963.8	+	15	1897	c.1726G>A	c.(1726-1728)Gtg>Atg	p.V576M		NM_173558.3	NP_775829.2	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	576	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			central_nervous_system(1)|endometrium(6)|large_intestine(5)|lung(7)|ovary(1)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)	25						TGACCCCCTCGTGCTCTATGT	0.662000													5	69					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414379	20414379	+	Silent	SNP	G	G	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr9:20414379G>A	ENST00000380338.4	-	5	751	c.465C>T	c.(463-465)agC>agT	p.S155S	MLLT3_ENST00000355930.6_5'UTR|MLLT3_ENST00000475957.1_5'UTR|MLLT3_ENST00000429426.2_Silent_p.S152S	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	155	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S155S(4)		central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctactgctgctgctgc	0.532000			T	MLL	ALL								4	35					0	0	1	0	0
MDK	4192	broad.mit.edu	37	11	46404253	46404253	+	Missense_Mutation	SNP	C	C	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr11:46404253C>A	ENST00000405308.2	+	4	790	c.361C>A	c.(361-363)Cgc>Agc	p.R121S	MDK_ENST00000395565.1_Missense_Mutation_p.R121S|MDK_ENST00000395569.4_Missense_Mutation_p.R65S|MDK_ENST00000395566.4_Missense_Mutation_p.R121S|MDK_ENST00000533283.1_3'UTR|MDK_ENST00000407067.1_Missense_Mutation_p.R121S|MDK_ENST00000359803.3_Missense_Mutation_p.R121S	NM_001270550.1	NP_001257479.1	P21741	MK_HUMAN	midkine (neurite growth-promoting factor 2)	121					adrenal gland development|cell differentiation|nervous system development|positive regulation of cell division|response to wounding|signal transduction	extracellular region	growth factor activity|heparin binding			lung(1)	1				GBM - Glioblastoma multiforme(35;0.0252)|Lung(87;0.14)		GGAGACCATCCGCGTCACCAA	0.652000													3	37					6.4e-05	6.93333e-05	1	1	0
DNAH8	1769	broad.mit.edu	37	6	38840747	38840747	+	Missense_Mutation	SNP	G	G	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr6:38840747G>A	ENST00000359357.3	+	49	6906	c.6652G>A	c.(6652-6654)Gtt>Att	p.V2218I	DNAH8_ENST00000449981.2_Missense_Mutation_p.V2435I|DNAH8_ENST00000441566.1_Missense_Mutation_p.V2182I					dynein, axonemal, heavy chain 8									p.V2218I(2)		NS(7)|breast(9)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(16)|large_intestine(44)|liver(4)|lung(101)|ovary(7)|pancreas(2)|prostate(8)|skin(28)|stomach(4)|upper_aerodigestive_tract(6)|urinary_tract(4)	260						CTTAAATTCCGTTTTGGATGA	0.383000													13	74					0	0	1	0	0
ALMS1	7840	broad.mit.edu	37	2	73675529	73675529	+	Silent	SNP	A	A	G			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr2:73675529A>G	ENST00000264448.6	+	8	1983	c.1872A>G	c.(1870-1872)agA>agG	p.R624R	ALMS1_ENST00000409009.1_Silent_p.R582R|ALMS1_ENST00000377715.1_Silent_p.R624R	NM_015120.4	NP_055935.4	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	624	34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				breast(4)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(31)|lung(68)|ovary(4)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	147						ACTCACATAGAGAGAAGCCTG	0.468000													11	104					0	0	1	0	0
SLC6A9	6536	broad.mit.edu	37	1	44474156	44474156	+	Silent	SNP	C	C	T			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr1:44474156C>T	ENST00000372310.3	-	5	624	c.459G>A	c.(457-459)acG>acA	p.T153T	SLC6A9_ENST00000537678.1_Silent_p.T88T|SLC6A9_ENST00000475075.2_Silent_p.T42T|SLC6A9_ENST00000372306.3_Silent_p.T153T|SLC6A9_ENST00000372307.3_Silent_p.T88T|SLC6A9_ENST00000360584.2_Silent_p.T226T|SLC6A9_ENST00000357730.2_Silent_p.T172T	NM_001024845.2	NP_001020016.1	P48067	SC6A9_HUMAN	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	226						integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			endometrium(3)|large_intestine(8)|lung(7)|ovary(1)|skin(1)|urinary_tract(2)	22	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	CGCAGTCATGCGTGTTCCAGG	0.592000													3	48					0	0	1	0	0
MAGEC1	9947	broad.mit.edu	37	X	140994960	140994960	+	Silent	SNP	G	G	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chrX:140994960G>A	ENST00000285879.4	+	4	2056	c.1770G>A	c.(1768-1770)ctG>ctA	p.L590L	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	590							protein binding			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					AGGACTCCCTGTCTCCTCACT	0.567000										HNSCC(15;0.026)			6	220					0	0	1	0	0
CHD2	1106	broad.mit.edu	37	15	93545433	93545434	+	Frame_Shift_Ins	INS	-	-	A			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr15:93545433_93545434insA	ENST00000394196.4	+	33	5232_5233	c.4164_4165insA	c.(4162-4167)ataaaafs	p.IK1388fs	CHD2_ENST00000557381.1_Frame_Shift_Ins_p.IK1388fs	NM_001271.3	NP_001262.3	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1388					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(2)|large_intestine(10)|lung(17)|ovary(1)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	47	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			AAAGTCCAATgaaaaaaaaaca	0.337													7	120	---	---	---	---					
BAGE2	85319	broad.mit.edu	37	21	11085940	11085942	+	RNA	DEL	CAC	CAC	-			TCGA-W2-A7H5-01B-11D-A35I-08	TCGA-W2-A7H5-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	906c1c9f-7beb-4389-a3d4-56025e606b9f	501494b0-58f4-47d0-a5f3-98c2ffdbefee	g.chr21:11085940_11085942delCAC	ENST00000470054.1	-	0	324									B melanoma antigen family, member 2															Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ccaccaccatcaccaccaccacc	0.532													3	5	---	---	---	---					
