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
ZNF733P	0	broad.mit.edu	37	7	62752443	62752443	+	RNA	SNP	G	G	C			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr7:62752443G>C	ENST00000331425.6	-	0	992					NR_003952.1																						CTTATGTCTAGTAAGGTTTGA	0.438000													3	26					0	0	0.000248	0	0
KIF9	64147	broad.mit.edu	37	3	47308733	47308733	+	Missense_Mutation	SNP	T	T	C			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr3:47308733T>C	ENST00000335044.2	-	6	969	c.612A>G	c.(610-612)atA>atG	p.I204M	KIF9_ENST00000265529.3_Missense_Mutation_p.I204M|KIF9_ENST00000444589.2_Missense_Mutation_p.I204M|KIF9_ENST00000452770.2_Missense_Mutation_p.I204M|KIF9_ENST00000352910.4_Missense_Mutation_p.I111M|KIF9_ENST00000487440.1_5'UTR	NM_001134878.1|NM_182902.3	NP_001128350.1|NP_878905.2	Q9HAQ2	KIF9_HUMAN	kinesin family member 9	204	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)|endometrium(2)|large_intestine(8)|lung(15)|skin(4)|stomach(2)|upper_aerodigestive_tract(2)	34		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TGTGGGAGGCTATAATCCTGT	0.443000													3	236					0	0	0.004672	0	0
DNASE2	1777	broad.mit.edu	37	19	12991827	12991827	+	Missense_Mutation	SNP	C	C	T			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr19:12991827C>T	ENST00000222219.3	-	2	318	c.226G>A	c.(226-228)Ggc>Agc	p.G76S	CTD-2265O21.7_ENST00000592400.1_RNA|DNASE2_ENST00000538460.1_Missense_Mutation_p.G76S	NM_001375.2	NP_001366.1	O00115	DNS2A_HUMAN	deoxyribonuclease II, lysosomal	76					apoptosis	lysosome	deoxyribonuclease II activity|DNA binding|protein binding			breast(1)|large_intestine(1)|lung(4)|ovary(1)	7						AGGCTTCGGCCCACGGCCCCC	0.692000													25	19					0	0	0.003954	0	0
ERG	2078	broad.mit.edu	37	21	39795356	39795356	+	Missense_Mutation	SNP	C	C	G			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr21:39795356C>G	ENST00000442448.1	-	5	656	c.385G>C	c.(385-387)Gag>Cag	p.E129Q	ERG_ENST00000398907.1_Missense_Mutation_p.E122Q|ERG_ENST00000288319.7_Missense_Mutation_p.E122Q|ERG_ENST00000398897.1_Missense_Mutation_p.E30Q|ERG_ENST00000398919.2_Missense_Mutation_p.E129Q|ERG_ENST00000417133.2_Missense_Mutation_p.E129Q|ERG_ENST00000453032.2_Missense_Mutation_p.E30Q|ERG_ENST00000398911.1_Missense_Mutation_p.E129Q|ERG_ENST00000398905.1_Missense_Mutation_p.E122Q|ERG_ENST00000398910.1_Missense_Mutation_p.E129Q|ERG_ENST00000429727.2_Missense_Mutation_p.E122Q	NM_004449.4	NP_004440.1	P11308	ERG_HUMAN	v-ets avian erythroblastosis virus E26 oncogene homolog	129	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		EWSR1/ERG(178)|NDRG1/ERG(5)|TMPRSS2/ERG(3582)|FUS/ERG(167)|SLC45A3/ERG(50)	lung(2)|ovary(1)|skin(1)	4		Prostate(19;3.6e-06)				ACTCTGCGCTCGTTCGTGGTC	0.597000			T	"""EWSR1, TMPRSS2, ELF4, FUS, HERPUD1, NDRG1"""	"""Ewing sarcoma, prostate, AML"""								12	23					0	0	0.001855	0	0
FRG1B	0	broad.mit.edu	37	20	29628251	29628251	+	Missense_Mutation	SNP	A	A	G			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr20:29628251A>G	ENST00000278882.3	+	6	633	c.253A>G	c.(253-255)Aat>Gat	p.N85D	FRG1B_ENST00000439954.2_Missense_Mutation_p.N90D|FRG1B_ENST00000358464.4_Missense_Mutation_p.N85D														p.N85D(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GTTGGCCTCAAATAGCTGCTT	0.358000													4	76					0	0	0.006214	0	0
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	T	C	rs11554290		TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr1:115256529T>C	ENST00000369535.4	-	3	435	c.182A>G	c.(181-183)cAa>cGa	p.Q61R		NM_002524.4	NP_002515.1	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61			Q -> K (in neuroblastoma cell).|Q -> R (in lung carcinoma cell and melanoma; dbSNP:rs11554290).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(817)|p.Q61L(175)|p.Q61P(23)|p.Q61K(1)		NS(134)|adrenal_gland(9)|autonomic_ganglia(9)|biliary_tract(6)|bone(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(11)|eye(3)|haematopoietic_and_lymphoid_tissue(1115)|kidney(3)|large_intestine(105)|liver(10)|lung(42)|meninges(2)|ovary(7)|pancreas(5)|prostate(8)|skin(1144)|soft_tissue(37)|stomach(5)|testis(8)|thyroid(359)|upper_aerodigestive_tract(28)|urinary_tract(13)	3085	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACTCTTCTTGTCCAGCTGT	0.458000	Q61L(C3A_LIVER)|Q61L(HEPG2_LIVER)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MELJUSO_SKIN)|Q61L(MHHES1_BONE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(HT1197_URINARY_TRACT)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(KU1919_URINARY_TRACT)|Q61R(NCIH2347_LUNG)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(SKMEL2_SKIN)|Q61R(SW1271_LUNG)|Q61R(TT2609C02_THYROID)	50	Mis		"""melanoma, MM, AML, thyroid"""				Noonan syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			56	87					0	0	0.003610	0	0
UNC50	25972	broad.mit.edu	37	2	99226304	99226304	+	Missense_Mutation	SNP	G	G	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr2:99226304G>A	ENST00000409975.1	+	1	1263	c.133G>A	c.(133-135)Gga>Aga	p.G45R	UNC50_ENST00000357765.2_Missense_Mutation_p.G28R|UNC50_ENST00000409347.1_Missense_Mutation_p.G45R			Q53HI1	UNC50_HUMAN	unc-50 homolog (C. elegans)	28					protein transport	Golgi membrane|integral to membrane|nuclear inner membrane	RNA binding			breast(1)|kidney(1)|large_intestine(2)|liver(1)|lung(4)|skin(1)	10						ACACACAGCCGGAGCGAAACG	0.483000													4	191					0	0	0.000248	0	0
PDHA2	5161	broad.mit.edu	37	4	96761513	96761513	+	Missense_Mutation	SNP	G	G	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr4:96761513G>A	ENST00000295266.4	+	1	275	c.212G>A	c.(211-213)cGc>cAc	p.R71H		NM_005390.4	NP_005381.1	P29803	ODPAT_HUMAN	pyruvate dehydrogenase (lipoamide) alpha 2	71					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity	p.R71H(2)		NS(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(23)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	46		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	ACTGTTCGCCGCATGGAATTG	0.507000													4	76					0	0	0.000248	0	0
LL22NC03-80A10.6	0	broad.mit.edu	37	22	22663087	22663087	+	RNA	SNP	A	A	G	rs1054158		TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr22:22663087A>G	ENST00000426066.1	+	0	526					NR_027293.1																						GCTGCCACATAAGTTGTCCTT	0.303000													4	40					0	0	0.000248	0	0
CHID1	66005	broad.mit.edu	37	11	883172	883172	+	Missense_Mutation	SNP	G	G	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr11:883172G>A	ENST00000449825.1	-	10	1291	c.935C>T	c.(934-936)gCc>gTc	p.A312V	CHID1_ENST00000454838.2_Missense_Mutation_p.A337V|CHID1_ENST00000323541.7_Missense_Mutation_p.A342V|CHID1_ENST00000436108.2_Missense_Mutation_p.A312V|CHID1_ENST00000429789.2_Missense_Mutation_p.A281V|CHID1_ENST00000526714.1_5'UTR|CHID1_ENST00000336845.5_Missense_Mutation_p.A337V|CHID1_ENST00000323578.8_Missense_Mutation_p.A312V|CHID1_ENST00000528581.1_Missense_Mutation_p.A337V	NM_001142675.1	NP_001136147.1	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1	312					chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity			endometrium(4)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|skin(1)	13		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		AGGCTCACGGGCATCCTTGGA	0.622000													4	144					0	0	0.000248	0	0
TSSC2	0	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	C	T			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-10A-01D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	f019b164-6be7-43df-b9db-6191e32ff67f	g.chr11:3427845C>T	ENST00000529482.1	+	0	962																											CTTCAAGTGGCAGGAGCAGAA	0.587000													7	55					0	0	0.001984	0	0
RPF2	84154	broad.mit.edu	37	6	111346773	111346773	+	Silent	SNP	T	T	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr6:111346773T>A	ENST00000441448.2	+	10	1001	c.909T>A	c.(907-909)atT>atA	p.I303I		NM_032194.1	NP_115570.1	Q9H7B2	RPF2_HUMAN	ribosome production factor 2 homolog (S. cerevisiae)	303						nucleolus	protein binding	p.I303I(1)		central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|ovary(2)	7						CAAAAAGAATTAAAAAAAATT	0.368000													7	16					0	0	0.003080	0	0
KIF9	64147	broad.mit.edu	37	3	47308733	47308733	+	Missense_Mutation	SNP	T	T	C			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr3:47308733T>C	ENST00000335044.2	-	6	969	c.612A>G	c.(610-612)atA>atG	p.I204M	KIF9_ENST00000452770.2_Missense_Mutation_p.I204M|KIF9_ENST00000265529.3_Missense_Mutation_p.I204M|KIF9_ENST00000444589.2_Missense_Mutation_p.I204M|KIF9_ENST00000487440.1_5'UTR|KIF9_ENST00000352910.4_Missense_Mutation_p.I111M	NM_001134878.1|NM_182902.3	NP_001128350.1|NP_878905.2	Q9HAQ2	KIF9_HUMAN	kinesin family member 9	204	Kinesin-motor.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)|endometrium(2)|large_intestine(8)|lung(15)|skin(4)|stomach(2)|upper_aerodigestive_tract(2)	34		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TGTGGGAGGCTATAATCCTGT	0.443000													3	236					0	0	0.004672	0	0
DNASE2	1777	broad.mit.edu	37	19	12991827	12991827	+	Missense_Mutation	SNP	C	C	T			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr19:12991827C>T	ENST00000222219.3	-	2	318	c.226G>A	c.(226-228)Ggc>Agc	p.G76S	CTD-2265O21.7_ENST00000592400.1_RNA|DNASE2_ENST00000538460.1_Missense_Mutation_p.G76S	NM_001375.2	NP_001366.1	O00115	DNS2A_HUMAN	deoxyribonuclease II, lysosomal	76					apoptosis	lysosome	deoxyribonuclease II activity|DNA binding|protein binding			breast(1)|large_intestine(1)|lung(4)|ovary(1)	7						AGGCTTCGGCCCACGGCCCCC	0.692000													25	19					0	0	0.003954	0	0
ERG	2078	broad.mit.edu	37	21	39795356	39795356	+	Missense_Mutation	SNP	C	C	G			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr21:39795356C>G	ENST00000442448.1	-	5	656	c.385G>C	c.(385-387)Gag>Cag	p.E129Q	ERG_ENST00000398919.2_Missense_Mutation_p.E129Q|ERG_ENST00000398907.1_Missense_Mutation_p.E122Q|ERG_ENST00000398905.1_Missense_Mutation_p.E122Q|ERG_ENST00000429727.2_Missense_Mutation_p.E122Q|ERG_ENST00000398910.1_Missense_Mutation_p.E129Q|ERG_ENST00000398911.1_Missense_Mutation_p.E129Q|ERG_ENST00000398897.1_Missense_Mutation_p.E30Q|ERG_ENST00000417133.2_Missense_Mutation_p.E129Q|ERG_ENST00000453032.2_Missense_Mutation_p.E30Q|ERG_ENST00000288319.7_Missense_Mutation_p.E122Q	NM_004449.4	NP_004440.1	P11308	ERG_HUMAN	v-ets avian erythroblastosis virus E26 oncogene homolog	129	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		EWSR1/ERG(178)|NDRG1/ERG(5)|TMPRSS2/ERG(3582)|FUS/ERG(167)|SLC45A3/ERG(50)	lung(2)|ovary(1)|skin(1)	4		Prostate(19;3.6e-06)				ACTCTGCGCTCGTTCGTGGTC	0.597000			T	"""EWSR1, TMPRSS2, ELF4, FUS, HERPUD1, NDRG1"""	"""Ewing sarcoma, prostate, AML"""								12	23					0	0	0.001855	0	0
LINC00969	0	broad.mit.edu	37	3	195410627	195410627	+	RNA	SNP	A	A	G	rs6583272	by1000genomes	TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr3:195410627A>G	ENST00000445430.1	+	0	1824																											CCTCAGGTGCAGATTGATGAG	0.473000													4	12					0	0	0.000602	0	0
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	T	C	rs11554290		TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr1:115256529T>C	ENST00000369535.4	-	3	435	c.182A>G	c.(181-183)cAa>cGa	p.Q61R		NM_002524.4	NP_002515.1	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61			Q -> K (in neuroblastoma cell).|Q -> R (in lung carcinoma cell and melanoma; dbSNP:rs11554290).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(817)|p.Q61L(175)|p.Q61P(23)|p.Q61K(1)		NS(134)|adrenal_gland(9)|autonomic_ganglia(9)|biliary_tract(6)|bone(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(11)|eye(3)|haematopoietic_and_lymphoid_tissue(1115)|kidney(3)|large_intestine(105)|liver(10)|lung(42)|meninges(2)|ovary(7)|pancreas(5)|prostate(8)|skin(1144)|soft_tissue(37)|stomach(5)|testis(8)|thyroid(359)|upper_aerodigestive_tract(28)|urinary_tract(13)	3085	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACTCTTCTTGTCCAGCTGT	0.458000	Q61L(C3A_LIVER)|Q61L(HEPG2_LIVER)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MELJUSO_SKIN)|Q61L(MHHES1_BONE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(HT1197_URINARY_TRACT)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(KU1919_URINARY_TRACT)|Q61R(NCIH2347_LUNG)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(SKMEL2_SKIN)|Q61R(SW1271_LUNG)|Q61R(TT2609C02_THYROID)	50	Mis		"""melanoma, MM, AML, thyroid"""				Noonan syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			56	87					0	0	0.003610	0	0
RP11-383M4.6	0	broad.mit.edu	37	9	84547870	84547870	+	RNA	SNP	T	T	C	rs138226188	by1000genomes	TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr9:84547870T>C	ENST00000585776.1	-	0	1039				SPATA31D4_ENST00000341875.4_RNA																							CGTGAACCCATAGAAATCTTC	0.428000													11	26					0	0	0.008291	0	0
MLLT3	4300	broad.mit.edu	37	9	20414343	20414343	+	Silent	SNP	A	A	G			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr9:20414343A>G	ENST00000380338.4	-	5	787	c.501T>C	c.(499-501)agT>agC	p.S167S	MLLT3_ENST00000429426.2_Silent_p.S164S|MLLT3_ENST00000355930.6_5'UTR|MLLT3_ENST00000475957.1_5'UTR	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	167	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S167S(19)		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)		tgctgctgctactgctgctgc	0.532000			T	MLL	ALL								6	44					0	0	0.003080	0	0
UNC50	25972	broad.mit.edu	37	2	99226304	99226304	+	Missense_Mutation	SNP	G	G	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr2:99226304G>A	ENST00000409975.1	+	1	1263	c.133G>A	c.(133-135)Gga>Aga	p.G45R	UNC50_ENST00000409347.1_Missense_Mutation_p.G45R|UNC50_ENST00000357765.2_Missense_Mutation_p.G28R			Q53HI1	UNC50_HUMAN	unc-50 homolog (C. elegans)	28					protein transport	Golgi membrane|integral to membrane|nuclear inner membrane	RNA binding			breast(1)|kidney(1)|large_intestine(2)|liver(1)|lung(4)|skin(1)	10						ACACACAGCCGGAGCGAAACG	0.483000													4	191					0	0	0.000248	0	0
PDHA2	5161	broad.mit.edu	37	4	96761513	96761513	+	Missense_Mutation	SNP	G	G	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr4:96761513G>A	ENST00000295266.4	+	1	275	c.212G>A	c.(211-213)cGc>cAc	p.R71H		NM_005390.4	NP_005381.1	P29803	ODPAT_HUMAN	pyruvate dehydrogenase (lipoamide) alpha 2	71					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity	p.R71H(2)		NS(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(23)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	46		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	ACTGTTCGCCGCATGGAATTG	0.507000													4	76					0	0	0.000248	0	0
CHID1	66005	broad.mit.edu	37	11	883172	883172	+	Missense_Mutation	SNP	G	G	A			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr11:883172G>A	ENST00000449825.1	-	10	1291	c.935C>T	c.(934-936)gCc>gTc	p.A312V	CHID1_ENST00000454838.2_Missense_Mutation_p.A337V|CHID1_ENST00000526714.1_5'UTR|CHID1_ENST00000436108.2_Missense_Mutation_p.A312V|CHID1_ENST00000336845.5_Missense_Mutation_p.A337V|CHID1_ENST00000429789.2_Missense_Mutation_p.A281V|CHID1_ENST00000323541.7_Missense_Mutation_p.A342V|CHID1_ENST00000323578.8_Missense_Mutation_p.A312V|CHID1_ENST00000528581.1_Missense_Mutation_p.A337V	NM_001142675.1	NP_001136147.1	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1	312					chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity			endometrium(4)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|skin(1)	13		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		AGGCTCACGGGCATCCTTGGA	0.622000													4	144					0	0	0.000248	0	0
ABL1	25	broad.mit.edu	37	9	133759490	133759492	+	In_Frame_Del	DEL	AAG	AAG	-			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr9:133759490_133759492delAAG	ENST00000318560.5	+	11	2194_2196	c.1813_1815delAAG	c.(1813-1815)del	p.K609del		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	c-abl oncogene 1, non-receptor tyrosine kinase	609	Poly-Lys.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	CGCCTTGATCAAGAAGAAGAAGA	0.616			"""T, Mis"""	"""BCR, ETV6, NUP214"""	"""CML, ALL, T-ALL"""								7	149	---	---	---	---					
ASPSCR1	79058	broad.mit.edu	37	17	79966911	79966925	+	Splice_Site	DEL	AGCCCGTGGACCGGG	AGCCCGTGGACCGGG	-			TCGA-BJ-A2N7-01A-11D-A18F-08	TCGA-BJ-A2N7-11A-11D-A18F-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	de442e29-fc8d-43ac-ab0f-2998b2ca7df2	aabbbea7-bee7-4732-aa63-bbeebc54dcd4	g.chr17:79966911_79966925delAGCCCGTGGACCGGG	ENST00000306729.7	+	8	1030_1043	c.933_splice	c.e8-1	p.R311_splice	ASPSCR1_ENST00000306739.4_Splice_Site_p.R311_splice|ASPSCR1_ENST00000580534.1_Splice_Site_p.R234_splice	NM_001251888.1	NP_001238817.1	Q9BZE9	ASPC1_HUMAN	alveolar soft part sarcoma chromosome region, candidate 1	311		Breakpoint for translocation to form ASPSCR1-TFE3.					protein binding		ASPSCR1/TFE3(167)	breast(2)|large_intestine(2)	4	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			CTCTGCCTCCAGCCCGTGGACCGGGAGCCCGTGGA	0.721			T	TFE3	alveolar soft part sarcoma								4	5	---	---	---	---