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
SLC45A4	57210	broad.mit.edu	37	8	142231785	142231785	+	Silent	SNP	A	A	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr8:142231785A>T	ENST00000519067.1	-	2	471	c.168T>A	c.(166-168)tcT>tcA	p.S56S	SLC45A4_ENST00000024061.3_Silent_p.S56S|SLC45A4_ENST00000433583.2_Silent_p.S49S|SLC45A4_ENST00000517878.1_Silent_p.S107S			Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	107					transport	integral to membrane				breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(6)|lung(9)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	31	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGTCACTCGCAGACCCAATGA	0.632000													11	88					0	0	0.105934	0	0
GRM1	2911	broad.mit.edu	37	6	146351093	146351093	+	Missense_Mutation	SNP	T	T	C			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr6:146351093T>C	ENST00000392299.2	+	2	910	c.440T>C	c.(439-441)cTc>cCc	p.L147P	GRM1_ENST00000492807.2_Missense_Mutation_p.L147P|GRM1_ENST00000355289.4_Missense_Mutation_p.L147P|GRM1_ENST00000507907.1_Missense_Mutation_p.L147P|GRM1_ENST00000361719.2_Missense_Mutation_p.L147P|GRM1_ENST00000282753.1_Missense_Mutation_p.L147P			Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1	147					synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			NS(2)|breast(5)|central_nervous_system(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(54)|ovary(7)|pancreas(2)|prostate(5)|skin(7)|upper_aerodigestive_tract(4)|urinary_tract(1)	126		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GGCCAGTCCCTCCCCCCAGGC	0.562000													3	113					0	0	0.115264	0	0
S100A6	6277	broad.mit.edu	37	1	153507784	153507784	+	Missense_Mutation	SNP	A	A	C			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr1:153507784A>C	ENST00000368720.2	-	3	334	c.32T>G	c.(31-33)cTc>cGc	p.L11R	S100A6_ENST00000496817.1_Missense_Mutation_p.L11R|S100A6_ENST00000368719.4_Missense_Mutation_p.L11R			P06703	S10A6_HUMAN	S100 calcium binding protein A6	11					axonogenesis|positive regulation of fibroblast proliferation|signal transduction	cytosol|extrinsic to internal side of plasma membrane|nuclear envelope|perinuclear region of cytoplasm|ruffle	calcium ion binding|calcium-dependent protein binding|protein homodimerization activity|S100 beta binding|tropomyosin binding			ovary(1)	1	all_lung(78;1.66e-32)|Lung NSC(65;5.71e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGCCACGAGGAGGCCAATGGC	0.602000													6	81					0	0	0.021553	0	0
C1orf101	257044	broad.mit.edu	37	1	244724433	244724433	+	Missense_Mutation	SNP	A	A	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr1:244724433A>T	ENST00000366534.4	+	10	1547	c.1493A>T	c.(1492-1494)cAt>cTt	p.H498L	C1orf101_ENST00000473875.1_3'UTR|C1orf101_ENST00000366533.4_Missense_Mutation_p.H498L|C1orf101_ENST00000366531.3_Missense_Mutation_p.H347L	NM_001130957.1	NP_001124429.1	Q5SY80	CA101_HUMAN	chromosome 1 open reading frame 101	498						integral to membrane				NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(8)|ovary(1)|prostate(2)|skin(2)|urinary_tract(3)	36	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			AGCATTATTCATGAAGTTTTC	0.328000													6	92					0	0	0.021553	0	0
PRG4	10216	broad.mit.edu	37	1	186276357	186276357	+	Silent	SNP	T	T	C			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr1:186276357T>C	ENST00000445192.2	+	7	1551	c.1506T>C	c.(1504-1506)acT>acC	p.T502T	PRG4_ENST00000367483.4_Silent_p.T461T|PRG4_ENST00000367485.4_Silent_p.T409T|PRG4_ENST00000367486.3_Silent_p.T459T|PRG4_ENST00000367484.3_Intron	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	502	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						CACCCACCACTCCCAAGGAGC	0.647000													6	125					0	0	0.080935	0	0
OR2M3	127062	broad.mit.edu	37	1	248367157	248367157	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr1:248367157C>T	ENST00000456743.1	+	1	826	c.788C>T	c.(787-789)aCa>aTa	p.T263I		NM_001004689.1	NP_001004689.1	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M, member 3	263					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			endometrium(6)|large_intestine(4)|lung(33)|ovary(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	50	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATACGGCCCACATCTGATCGC	0.502000													67	125					0	0	0.139131	0	0
ANKRD20A2	441430	broad.mit.edu	37	9	42368593	42368593	+	Missense_Mutation	SNP	T	T	A			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr9:42368593T>A	ENST00000377601.2	+	1	291	c.179T>A	c.(178-180)cTg>cAg	p.L60Q		NM_001012421.1	NP_001012421.1	Q5SQ80	A20A2_HUMAN	ankyrin repeat domain 20 family, member A2	60										large_intestine(1)|lung(1)|ovary(1)|urinary_tract(1)	4						AGCGGAGACCTGGACGCCCTG	0.716000													4	99					0	0	0.014758	0	0
ALPK3	57538	broad.mit.edu	37	15	85401117	85401117	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr15:85401117G>A	ENST00000258888.5	+	6	3921	c.3754G>A	c.(3754-3756)Gct>Act	p.A1252T		NM_020778.4	NP_065829.3	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1252					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			NS(3)|breast(2)|central_nervous_system(2)|endometrium(12)|kidney(4)|large_intestine(9)|lung(27)|ovary(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	81			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TGAGGTGCAGGCTGGCCGCCA	0.682000													3	27					0	0	0.115264	0	0
C15orf43	145645	broad.mit.edu	37	15	45249168	45249168	+	Missense_Mutation	SNP	A	A	G			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr15:45249168A>G	ENST00000340827.3	+	2	156	c.139A>G	c.(139-141)Acg>Gcg	p.T47A		NM_152448.2	NP_689661.1	Q8NHR7	CO043_HUMAN	chromosome 15 open reading frame 43	47										NS(1)|breast(2)|large_intestine(1)|lung(2)|skin(2)	8		all_cancers(109;3.68e-08)|all_epithelial(112;1.05e-06)|Lung NSC(122;1.42e-05)|all_lung(180;0.000112)|Melanoma(134;0.0192)		all cancers(107;7.64e-17)|GBM - Glioblastoma multiforme(94;2.03e-06)		GCACCCAGACACGCTGAGGTA	0.552000													3	62					0	0	0.009096	0	0
SYNGAP1	8831	broad.mit.edu	37	6	33403335	33403335	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr6:33403335C>T	ENST00000418600.2	+	7	808	c.707C>T	c.(706-708)gCg>gTg	p.A236V	SYNGAP1_ENST00000293748.5_Missense_Mutation_p.A236V|SYNGAP1_ENST00000496374.1_3'UTR|SYNGAP1_ENST00000428982.2_Missense_Mutation_p.A177V	NM_006772.2	NP_006763.2	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	236	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(15)|ovary(7)|pancreas(1)|stomach(1)|urinary_tract(1)	43						TGTCGGTCTGCGGCCGAAAGA	0.507000													4	198					0	0	0.014758	0	0
ASXL1	171023	broad.mit.edu	37	20	31023131	31023131	+	Silent	SNP	C	C	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr20:31023131C>T	ENST00000375687.4	+	13	3040	c.2616C>T	c.(2614-2616)tgC>tgT	p.C872C	ASXL1_ENST00000306058.5_Silent_p.C867C	NM_015338.5	NP_056153.2	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 (Drosophila)	872					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			NS(1)|breast(2)|central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(655)|kidney(5)|large_intestine(18)|liver(1)|lung(27)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	722						GTGGCTCATGCCCTCCTATGA	0.463000			"""F, N, Mis"""		"""MDS, CMML"""								5	187					0	0	0.014758	0	0
DST	667	broad.mit.edu	37	6	56458993	56458993	+	Splice_Site	SNP	T	T	C			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr6:56458993T>C	ENST00000370754.5	-	48	12102		c.e48-2		DST_ENST00000421834.2_Splice_Site|DST_ENST00000446842.2_Splice_Site|DST_ENST00000312431.6_Splice_Site|DST_ENST00000370769.4_Splice_Site|DST_ENST00000370788.2_Splice_Site|DST_ENST00000244364.6_Splice_Site|DST_ENST00000361203.3_Splice_Site			Q03001	DYST_HUMAN	dystonin						cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GTGTTGGGCCTATGTGAAAAC	0.473000													3	178					0	0	0.009096	0	0
VPS13A	23230	broad.mit.edu	37	9	79867160	79867160	+	Missense_Mutation	SNP	G	G	C			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr9:79867160G>C	ENST00000360280.3	+	22	2440	c.2180G>C	c.(2179-2181)tGg>tCg	p.W727S	VPS13A_ENST00000357409.5_Missense_Mutation_p.W727S|VPS13A_ENST00000376634.4_Missense_Mutation_p.W727S|VPS13A_ENST00000376636.3_Missense_Mutation_p.W727S	NM_033305.2	NP_150648.2	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13 homolog A (S. cerevisiae)	727					Golgi to endosome transport|protein transport	intracellular	protein binding			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(28)|liver(1)|lung(42)|ovary(3)|pancreas(3)|prostate(3)|skin(9)|upper_aerodigestive_tract(1)|urinary_tract(1)	104						GGTGATAATTGGAGAGAAGCA	0.343000													3	104					0	0	0.014758	0	0
FRG1B	0	broad.mit.edu	37	20	29625941	29625941	+	Missense_Mutation	SNP	A	A	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr20:29625941A>T	ENST00000278882.3	+	5	565	c.185A>T	c.(184-186)gAt>gTt	p.D62V	FRG1B_ENST00000439954.2_Missense_Mutation_p.D67V|FRG1B_ENST00000358464.4_Missense_Mutation_p.D62V														p.D62V(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GGGCATTCAGATGCAATTGGA	0.333000													4	123					0	0	0.038147	0	0
ZNF799	90576	broad.mit.edu	37	19	12502822	12502822	+	Silent	SNP	T	T	C			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr19:12502822T>C	ENST00000419318.1	-	4	1043	c.294A>G	c.(292-294)ccA>ccG	p.P98P	CTD-3105H18.16_ENST00000595562.1_Silent_p.P130P|CTD-3105H18.14_ENST00000435033.1_Intron|ZNF799_ENST00000430385.3_Silent_p.P130P			Q96GE5	ZN799_HUMAN	zinc finger protein 799	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						GATACTCATATGGTTTGTGCC	0.443000													5	139					0	0	0.014758	0	0
RHPN2	85415	broad.mit.edu	37	19	33493198	33493198	+	Missense_Mutation	SNP	C	C	A			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr19:33493198C>A	ENST00000254260.3	-	9	1095	c.1060G>T	c.(1060-1062)Gcc>Tcc	p.A354S	RHPN2_ENST00000400226.4_Missense_Mutation_p.A203S	NM_033103.4	NP_149094.3	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	354	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			NS(1)|breast(3)|central_nervous_system(5)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(3)|skin(3)|urinary_tract(1)	44	Esophageal squamous(110;0.137)					TGGGCCAGGGCCGCGTAGTGG	0.642000													5	59					5.9392e-07	8.48457e-07	0.021553	1	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr7:140453136A>T	ENST00000288602.6	-	15	1859	c.1799T>A	c.(1798-1800)gTg>gAg	p.V600E		NM_004333.4	NP_004324.2	P15056	BRAF_HUMAN	v-raf murine sarcoma viral oncogene homolog B	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(15453)|p.V600K(252)|p.V600R(44)|p.V600D(16)|p.V600A(12)|p.V600_K601>E(12)|p.V600G(11)|p.T599_R603>I(2)|p.V600Q(2)|p.V600_S605>EK(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insDFGLAT(1)	SLC45A3/BRAF(2)|AGTRAP/BRAF(2)|FAM131B_ENST00000443739/BRAF(7)|AKAP9_ENST00000356239/BRAF(10)|KIAA1549/BRAF(703)|FCHSD1/BRAF(2)	NS(588)|adrenal_gland(3)|autonomic_ganglia(3)|biliary_tract(29)|bone(7)|breast(21)|central_nervous_system(99)|cervix(6)|endometrium(33)|eye(72)|gastrointestinal_tract_(site_indeterminate)(2)|genital_tract(4)|haematopoietic_and_lymphoid_tissue(436)|kidney(3)|large_intestine(6953)|liver(17)|lung(192)|oesophagus(4)|ovary(275)|pancreas(15)|pituitary(1)|prostate(25)|salivary_gland(1)|skin(6285)|small_intestine(12)|soft_tissue(40)|stomach(11)|testis(7)|thyroid(12220)|upper_aerodigestive_tract(13)|urinary_tract(3)	27380	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600D(K029AX_SKIN)|V600D(WM115_SKIN)|V600D(WM2664_SKIN)|V600E(8505C_THYROID)|V600E(A101D_SKIN)|V600E(A2058_SKIN)|V600E(A375_SKIN)|V600E(A673_BONE)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(BCPAP_THYROID)|V600E(BHT101_THYROID)|V600E(BT474_BREAST)|V600E(C32_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(COLO205_LARGE_INTESTINE)|V600E(COLO679_SKIN)|V600E(COLO741_SKIN)|V600E(COLO783_SKIN)|V600E(COLO800_SKIN)|V600E(COLO818_SKIN)|V600E(COLO829_SKIN)|V600E(COLO849_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(DU4475_BREAST)|V600E(ES2_OVARY)|V600E(G361_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(HS294T_SKIN)|V600E(HS695T_SKIN)|V600E(HS939T_SKIN)|V600E(IGR1_SKIN)|V600E(IGR37_SKIN)|V600E(IGR39_SKIN)|V600E(K029AX_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(LOXIMVI_SKIN)|V600E(MALME3M_SKIN)|V600E(MELHO_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(RKO_LARGE_INTESTINE)|V600E(RPMI7951_SKIN)|V600E(RVH421_SKIN)|V600E(SH4_SKIN)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(SKHEP1_LIVER)|V600E(SKMEL24_SKIN)|V600E(SKMEL28_SKIN)|V600E(SKMEL5_SKIN)|V600E(SW1417_LARGE_INTESTINE)|V600E(UACC257_SKIN)|V600E(UACC62_SKIN)|V600E(WM793_SKIN)|V600E(WM88_SKIN)|V600E(WM983B_SKIN)	61	"""Mis, T, O"""	"""AKAP9, KIAA1549"""	"""melanoma, colorectal, papillary thyroid, borderline ov, Non small-cell lung cancer (NSCLC), cholangiocarcinoma, pilocytic astrocytoma"""		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous syndrome				35	58					0	0	0.064281	0	0
IL22	50616	broad.mit.edu	37	12	68646552	68646552	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr12:68646552C>T	ENST00000538666.1	-	3	314	c.244G>A	c.(244-246)Gga>Aga	p.G82R	IL22_ENST00000328087.4_Missense_Mutation_p.G82R			Q9GZX6	IL22_HUMAN	interleukin 22	82					acute-phase response	extracellular space	cytokine activity|interleukin-22 receptor binding			breast(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)	14		Myeloproliferative disorder(1001;0.0255)	Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;5.06e-05)|BRCA - Breast invasive adenocarcinoma(357;0.00104)		ACACTGACTCCGTGGAACAGT	0.498000													4	82					0	0	0.014758	0	0
GALNT15	117248	broad.mit.edu	37	3	16254129	16254129	+	Silent	SNP	C	C	T			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr3:16254129C>T	ENST00000339732.5	+	6	1754	c.1251C>T	c.(1249-1251)caC>caT	p.H417H	GALNT15_ENST00000437509.1_Silent_p.H417H	NM_054110.4	NP_473451.3			UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 15																		GGGTAGGACACATCTACCAAA	0.532000													21	43					0	0	0.049695	0	0
CFD	1675	broad.mit.edu	37	19	860954	860954	+	Silent	SNP	C	C	A			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr19:860954C>A	ENST00000327726.6	+	3	543	c.306C>A	c.(304-306)ccC>ccA	p.P102P	CFD_ENST00000592860.1_Silent_p.P109P	NM_001928.2	NP_001919.2	P00746	CFAD_HUMAN	complement factor D (adipsin)	102	Peptidase S1.				complement activation, alternative pathway|platelet activation|platelet degranulation|proteolysis	platelet alpha granule lumen	serine-type endopeptidase activity						Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCAGTGCCCCACCCGGACA	0.721000													3	20					0.00909568	0.0121276	0.009096	1	0
MCC	4163	broad.mit.edu	37	5	112420872	112420872	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr5:112420872G>A	ENST00000302475.4	-	7	1527	c.964C>T	c.(964-966)Ccc>Tcc	p.P322S	MCC_ENST00000514701.3_5'UTR|MCC_ENST00000515367.2_Missense_Mutation_p.P259S|MCC_ENST00000408903.3_Missense_Mutation_p.P512S	NM_002387.2	NP_002378.1	P23508	CRCM_HUMAN	mutated in colorectal cancers	322					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			endometrium(4)|kidney(3)|large_intestine(15)|liver(2)|lung(8)|ovary(2)|pancreas(1)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		TTGGCGATGGGAATGTCATTG	0.612000													28	124					0	0	0.125774	0	0
PTPN18	26469	broad.mit.edu	37	2	131129929	131129934	+	In_Frame_Del	DEL	GACGGG	GACGGG	-	rs112040677		TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr2:131129929_131129934delGACGGG	ENST00000175756.5	+	13	1214_1219	c.1113_1118delGACGGG	c.(1111-1119)cag>ca	p.QTG371del	PTPN18_ENST00000347849.3_In_Frame_Del_p.QTG264del	NM_014369.3	NP_055184.2	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type 18 (brain-derived)	371						cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity	p.T378_G379delTG(1)		endometrium(1)|kidney(3)|large_intestine(2)|lung(5)|ovary(3)|prostate(1)	15	Colorectal(110;0.1)					gtgggacgcagacggggacggggacg	0.777													3	3	---	---	---	---					
RRP36	88745	broad.mit.edu	37	6	42989414	42989419	+	In_Frame_Del	DEL	GCCGGG	GCCGGG	-	rs60664426		TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr6:42989414_42989419delGCCGGG	ENST00000244496.5	+	1	32_37	c.22_27delGCCGGG	c.(22-27)del	p.AG14del		NM_033112.2	NP_149103.1	Q96EU6	RRP36_HUMAN	ribosomal RNA processing 36 homolog (S. cerevisiae)	14					ribosomal small subunit biogenesis|rRNA processing	nucleolus		p.A8_G9delAG(2)		NS(1)|breast(1)|central_nervous_system(1)|large_intestine(5)|lung(1)|ovary(1)|prostate(1)	11						TAACTAccgcgccggggccggggccg	0.777													2	4	---	---	---	---					
RP11-51O6.1	0	broad.mit.edu	37	16	61089302	61089302	+	RNA	DEL	C	C	-	rs80101907		TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr16:61089302delC	ENST00000591758.1	-	0	566																											GCttcttcttctttttttttt	0.244													8	16	---	---	---	---					
LILRB1	0	broad.mit.edu	37	19	55143156	55143157	+	Frame_Shift_Del	DEL	TG	TG	-	rs12462774	by1000genomes	TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr19:55143156_55143157delTG	ENST00000396331.1	+	5	633_634	c.276_277delTG	c.(274-279)cacafs	p.HA92fs	LILRB1_ENST00000396317.1_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000448689.1_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000396332.4_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000434867.2_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000396327.3_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000324602.7_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000427581.2_Frame_Shift_Del_p.HA128fs|LILRB1_ENST00000396315.1_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000396321.2_Frame_Shift_Del_p.HA92fs|LILRB1_ENST00000418536.2_Frame_Shift_Del_p.HA92fs	NM_006669.3	NP_006660.3	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 1	92	Ig-like C2-type 1.				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			NS(2)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(38)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	74				GBM - Glioblastoma multiforme(193;0.0188)		CCTGGGAACATGCAGGGCGGTA	0.554										HNSCC(37;0.09)			8	136	---	---	---	---					
TRIM28	10155	broad.mit.edu	37	19	59060278	59060279	+	Splice_Site	INS	-	-	T	rs111630223		TCGA-EM-A3AK-01A-11D-A202-08	TCGA-EM-A3AK-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	815390f2-b204-4cf0-83be-831e4aa3fa54	685117cd-be36-48a9-ad48-fbb85198ef57	g.chr19:59060278_59060279insT	ENST00000253024.5	+	11	1698		c.e11+1		TRIM28_ENST00000341753.6_Splice_Site	NM_005762.2	NP_005753.1	Q13263	TIF1B_HUMAN	tripartite motif containing 28						epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			biliary_tract(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|urinary_tract(1)	19		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		GTGTGAAACGGTAAGTATGGCA	0.564													15	80	---	---	---	---