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
OR10H2	26538	broad.mit.edu	37	19	15839173	15839173	+	Missense_Mutation	SNP	T	T	C			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr19:15839173T>C	ENST00000305899.3	+	1	340	c.320T>C	c.(319-321)tTc>tCc	p.F107S		NM_013939.2	NP_039227.1	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H, member 2	107					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(1)	27	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					TCCTTCAGCTTCGGCTTCACC	0.642000													22	22					0	0	1	0	0
NOTCH1	4851	broad.mit.edu	37	9	139395286	139395286	+	Silent	SNP	C	C	T			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr9:139395286C>T	ENST00000277541.6	-	31	5727	c.5652G>A	c.(5650-5652)ccG>ccA	p.P1884P		NM_017617.3	NP_060087.3	P46531	NOTC1_HUMAN	notch 1	1884					aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CGATCATGAGCGGGGTGAAGC	0.692000			"""T, Mis, O"""	TRB@	T-ALL					HNSCC(8;0.001)			7	8					0	0	1	0	0
TACC2	10579	broad.mit.edu	37	10	123810032	123810032	+	Missense_Mutation	SNP	C	C	T			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr10:123810032C>T	ENST00000369005.1	+	3	453	c.113C>T	c.(112-114)aCg>aTg	p.T38M	TACC2_ENST00000515603.1_Missense_Mutation_p.T38M|TACC2_ENST00000453444.2_Missense_Mutation_p.T38M|TACC2_ENST00000515273.1_Missense_Mutation_p.T38M|TACC2_ENST00000513429.1_Missense_Mutation_p.T38M|TACC2_ENST00000358010.1_Missense_Mutation_p.T38M|TACC2_ENST00000334433.3_Missense_Mutation_p.T38M	NM_206862.2	NP_996744.2	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing protein 2	38						microtubule organizing center|nucleus	nuclear hormone receptor binding	p.T38M(1)		NS(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(15)|lung(27)|ovary(6)|prostate(3)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	83		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CAGCAGGACACGCCCGGAAGC	0.577000													6	36					0	0	1	0	0
HRAS	3265	broad.mit.edu	37	11	533874	533874	+	Missense_Mutation	SNP	T	T	C	rs121913233		TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr11:533874T>C	ENST00000417302.1	-	3	369	c.182A>G	c.(181-183)cAg>cGg	p.Q61R	HRAS_ENST00000311189.7_Missense_Mutation_p.Q61R|HRAS_ENST00000397594.1_Missense_Mutation_p.Q61R|HRAS_ENST00000451590.1_Missense_Mutation_p.Q61R|HRAS_ENST00000468682.2_5'UTR|HRAS_ENST00000397596.2_Missense_Mutation_p.Q61R	NM_176795.3	NP_789765.1	P01112	RASH_HUMAN	Harvey rat sarcoma viral oncogene homolog	61			Q -> K (in follicular thyroid carcinoma samples; somatic mutation; increases transformation of cultured cell lines; dbSNP:rs28933406).|Q -> L (in melanoma; strongly reduced GTP hydrolysis in the presence of RAF1; increases transformation of cultured cell lines).		activation of MAPKK activity|axon guidance|blood coagulation|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|Ras protein signal transduction|synaptic transmission	cytosol|Golgi membrane|plasma membrane	GTP binding|GTPase activity|protein C-terminus binding	p.Q61R(136)|p.Q61L(117)|p.Q61P(3)		adrenal_gland(1)|bone(3)|breast(7)|cervix(23)|endometrium(4)|haematopoietic_and_lymphoid_tissue(12)|kidney(1)|large_intestine(2)|liver(1)|lung(16)|oesophagus(2)|penis(2)|pituitary(10)|prostate(31)|salivary_gland(24)|skin(184)|soft_tissue(38)|stomach(14)|testis(5)|thymus(1)|thyroid(173)|upper_aerodigestive_tract(122)|urinary_tract(225)	901		all_cancers(49;4.37e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Sulindac(DB00605)	GTACTCCTCCTGGCCGGCGGT	0.597000	Q61L(KNS62_LUNG)|Q61L(KYSE30_OESOPHAGUS)|Q61L(NCIH1915_LUNG)	6	Mis		"""infrequent sarcomas, rare other types"""	"""rhadomyosarcoma, ganglioneuroblastoma, bladder"""			Costello syndrome	HNSCC(11;0.0054)			28	58					0	0	1	0	0
MUC4	4585	broad.mit.edu	37	3	195505836	195505836	+	Missense_Mutation	SNP	G	G	C			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr3:195505836G>C	ENST00000463781.3	-	2	13074	c.12615C>G	c.(12613-12615)caC>caG	p.H4205Q	MUC4_ENST00000349607.4_Intron|MUC4_ENST00000346145.4_Intron|MUC4_ENST00000475231.1_Missense_Mutation_p.H4205Q	NM_018406.6	NP_060876.5	Q99102	MUC4_HUMAN	mucin 4, cell surface associated	968					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity	p.H4205Q(10)		NS(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(5)|lung(23)|ovary(3)|prostate(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGGGTGGCGTGACCTGTGG	0.597000													4	4					0	0	1	0	0
ADAMTS16	170690	broad.mit.edu	37	5	5239326	5239326	+	Silent	SNP	C	C	T			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr5:5239326C>T	ENST00000274181.7	+	15	2355	c.2217C>T	c.(2215-2217)aaC>aaT	p.N739N		NM_139056.2	NP_620687.2	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 16	739	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	p.N739N(4)		breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(72)|ovary(4)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	107						GGGTGTGTAACGGGAATAACT	0.512000													88	102					0	0	1	0	0
LILRB1	10859	broad.mit.edu	37	19	55144196	55144196	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr19:55144196G>A	ENST00000396331.1	+	7	1300	c.943G>A	c.(943-945)Gac>Aac	p.D315N	LILRB1_ENST00000396317.1_Missense_Mutation_p.D315N|LILRB1_ENST00000427581.2_Missense_Mutation_p.D351N|LILRB1_ENST00000396327.3_Missense_Mutation_p.D315N|LILRB1_ENST00000396315.1_Missense_Mutation_p.D315N|LILRB1_ENST00000434867.2_Missense_Mutation_p.D315N|LILRB1_ENST00000396321.2_Missense_Mutation_p.D315N|LILRB1_ENST00000448689.1_Missense_Mutation_p.D315N|LILRB1_ENST00000396332.4_Missense_Mutation_p.D315N|LILRB1_ENST00000324602.7_Missense_Mutation_p.D315N|LILRB1_ENST00000418536.2_Missense_Mutation_p.D315N	NM_006669.3	NP_006660.3	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 1	315	Ig-like C2-type 4.				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)		CGACCCCCTGGACATCCTGAT	0.677000										HNSCC(37;0.09)			4	60					0	0	1	0	0
SEC16B	89866	broad.mit.edu	37	1	177928060	177928060	+	Missense_Mutation	SNP	G	G	T			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr1:177928060G>T	ENST00000308284.6	-	9	1138	c.1049C>A	c.(1048-1050)gCt>gAt	p.A350D	RP4-798P15.3_ENST00000354921.2_5'UTR|SEC16B_ENST00000464631.1_Missense_Mutation_p.A351D|RP4-798P15.3_ENST00000528461.1_3'UTR	NM_033127.2	NP_149118.2	Q96JE7	SC16B_HUMAN	SEC16 homolog B (S. cerevisiae)	350					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(7)|lung(14)|ovary(3)|skin(1)|stomach(1)	35						GCAGCTCTGAGCTGCTTTCTG	0.483000													3	29					1	1	1	1	0
ZNRD1-AS1	80862	broad.mit.edu	37	6	29977377	29977377	+	RNA	SNP	C	C	G			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr6:29977377C>G	ENST00000376797.3	-	0	731				ZNRD1-AS1_ENST00000420251.1_RNA|HLA-J_ENST00000462773.1_RNA|ZNRD1-AS1_ENST00000425604.1_RNA|ZNRD1-AS1_ENST00000448093.1_RNA																							TTTGTGACTTCAAGAACCCTG	0.458000													3	66					0	0	1	0	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803543	142803543	+	RNA	SNP	C	C	T			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr1:142803543C>T	ENST00000423385.1	-	0	1422																											TGTTGGAATTCCTGATGAATC	0.269000													5	234					0	0	1	0	0
CHEK2	11200	broad.mit.edu	37	22	29091841	29091841	+	Silent	SNP	G	G	A	rs146546850	byFrequency	TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr22:29091841G>A	ENST00000544772.1	-	12	1889	c.453C>T	c.(451-453)tcC>tcT	p.S151S	CHEK2_ENST00000402731.1_Silent_p.S343S|CHEK2_ENST00000382580.2_Silent_p.S415S|CHEK2_ENST00000382578.1_Silent_p.S281S|CHEK2_ENST00000405598.1_Silent_p.S372S|CHEK2_ENST00000403642.1_Silent_p.S281S|CHEK2_ENST00000404276.1_Silent_p.S372S|CHEK2_ENST00000348295.3_Silent_p.S343S|CHEK2_ENST00000328354.6_Silent_p.S372S|CHEK2_ENST00000382566.1_3'UTR|CHEK2_ENST00000382565.1_Intron	NM_001257387.1	NP_001244316.1	O96017	CHK2_HUMAN	checkpoint kinase 2	372	FHA.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.S372S(8)		central_nervous_system(17)|endometrium(2)|kidney(11)|large_intestine(2)|lung(11)|ovary(1)|prostate(4)|stomach(2)	50						CCAAAATCTTGGAGTGCCCAA	0.413000			F			breast		Direct reversal of damage;Other conserved DNA damage response genes					5	43					0	0	1	0	0
BCRP7	100133163	broad.mit.edu	37	22	18845995	18845995	+	RNA	SNP	T	T	C			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr22:18845995T>C	ENST00000412938.1	+	0	3353																											CATCCCGTCCTGCGCAGGCCG	0.592000													5	37					0	0	1	0	0
C1orf200	644997	broad.mit.edu	37	1	9713899	9713899	+	Missense_Mutation	SNP	G	G	C			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr1:9713899G>C	ENST00000377320.3	-	2	591	c.442C>G	c.(442-444)Cag>Gag	p.Q148E	PIK3CD_ENST00000377346.4_Intron|PIK3CD_ENST00000536656.1_Intron					chromosome 1 open reading frame 200											endometrium(1)|large_intestine(2)|lung(5)|pancreas(1)	9	all_lung(157;0.222)	Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.86e-08)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(185;0.000231)|KIRC - Kidney renal clear cell carcinoma(229;0.000879)|BRCA - Breast invasive adenocarcinoma(304;0.00178)|STAD - Stomach adenocarcinoma(132;0.00331)|READ - Rectum adenocarcinoma(331;0.0419)		GCGGCTTCCTGGGCTTGGTCC	0.527000													8	67					0	0	1	0	0
ZNF878	729747	broad.mit.edu	37	19	12155757	12155757	+	Missense_Mutation	SNP	C	C	A			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr19:12155757C>A	ENST00000602107.1	-	5	599	c.600G>T	c.(598-600)agG>agT	p.R200S	CTD-2006C1.2_ENST00000591838.1_RNA|CTD-2006C1.2_ENST00000476474.1_RNA|CTD-2006C1.10_ENST00000547473.1_Intron|CTD-2006C1.2_ENST00000591898.1_RNA|ZNF878_ENST00000547628.1_Missense_Mutation_p.R153S			C9JN71	ZN878_HUMAN	zinc finger protein 878	153					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			cervix(1)|endometrium(1)|kidney(1)|lung(4)|urinary_tract(1)	8						AACTGGGAAACCTGAATGCTT	0.423000													4	158					0.00909568	0.00963072	1	1	0
GATAD2B	57459	broad.mit.edu	37	1	153784291	153784291	+	Missense_Mutation	SNP	T	T	C			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr1:153784291T>C	ENST00000368655.4	-	10	1807	c.1564A>G	c.(1564-1566)Ata>Gta	p.I522V		NM_020699.2	NP_065750.1	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	522						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(5)|lung(12)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	38	all_lung(78;1.34e-32)|Lung NSC(65;1.04e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GATGTGGGTATGCCACGCTGG	0.517000													17	17					0	0	1	0	0
PTPRK	5796	broad.mit.edu	37	6	128643275	128643275	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr6:128643275G>A	ENST00000368227.3	-	3	770	c.404C>T	c.(403-405)gCc>gTc	p.A135V	PTPRK_ENST00000368207.3_Missense_Mutation_p.A135V|PTPRK_ENST00000368215.3_Missense_Mutation_p.A135V|PTPRK_ENST00000525459.1_Missense_Mutation_p.A135V|PTPRK_ENST00000532331.1_Missense_Mutation_p.A135V|PTPRK_ENST00000524481.1_5'UTR|PTPRK_ENST00000368226.4_Missense_Mutation_p.A135V|PTPRK_ENST00000368210.3_Missense_Mutation_p.A135V|PTPRK_ENST00000368213.5_Missense_Mutation_p.A135V			Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	135	MAM.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity		PTPRK/RSPO3(10)	autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(14)|lung(24)|ovary(3)|pancreas(1)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(1)	72				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		AATTGGATTGGCAAGAGGTCC	0.433000													4	64					0	0	1	0	0
BMS1P20	96610	broad.mit.edu	37	22	22661478	22661478	+	RNA	SNP	T	T	G			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr22:22661478T>G	ENST00000426066.1	+	0	368					NR_027293.1																						CAGATGCGTCTGAAGAAACAT	0.488000													4	70					0	0	1	0	0
PRMT1	3276	broad.mit.edu	37	19	50189933	50189933	+	Missense_Mutation	SNP	G	G	T			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr19:50189933G>T	ENST00000532489.1	+	10	1350	c.844G>T	c.(844-846)Ggc>Tgc	p.G282C	PRMT1_ENST00000391851.4_Missense_Mutation_p.G310C|PRMT1_ENST00000454376.2_Missense_Mutation_p.G328C			Q8WUW5	Q8WUW5_HUMAN	protein arginine methyltransferase 1	309						cytoplasm	protein methyltransferase activity			cervix(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(4)|ovary(2)	12		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		CGTGAAGACGGGCGAGGAGAT	0.682000													20	23					6.12954e-19	7.11817e-19	1	1	0
HSD17B7P2	158160	broad.mit.edu	37	10	38654432	38654432	+	RNA	SNP	A	A	G	rs2257765		TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr10:38654432A>G	ENST00000494540.1	+	0	599					NR_003086.1																						TCATCTCGCAATGCAAGGAAA	0.453000													3	52					0	0	1	0	0
CHEK2	11200	broad.mit.edu	37	22	29091840	29091840	+	Missense_Mutation	SNP	T	T	C	rs142470496	byFrequency	TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr22:29091840T>C	ENST00000544772.1	-	12	1890	c.454A>G	c.(454-456)Aag>Gag	p.K152E	CHEK2_ENST00000402731.1_Missense_Mutation_p.K344E|CHEK2_ENST00000382580.2_Missense_Mutation_p.K416E|CHEK2_ENST00000382578.1_Missense_Mutation_p.K282E|CHEK2_ENST00000405598.1_Missense_Mutation_p.K373E|CHEK2_ENST00000403642.1_Missense_Mutation_p.K282E|CHEK2_ENST00000404276.1_Missense_Mutation_p.K373E|CHEK2_ENST00000348295.3_Missense_Mutation_p.K344E|CHEK2_ENST00000328354.6_Missense_Mutation_p.K373E|CHEK2_ENST00000382566.1_3'UTR|CHEK2_ENST00000382565.1_Intron	NM_001257387.1	NP_001244316.1	O96017	CHK2_HUMAN	checkpoint kinase 2	373	FHA.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.K373E(9)		central_nervous_system(17)|endometrium(2)|kidney(11)|large_intestine(2)|lung(11)|ovary(1)|prostate(4)|stomach(2)	50						CCCAAAATCTTGGAGTGCCCA	0.418000			F			breast		Direct reversal of damage;Other conserved DNA damage response genes					5	44					0	0	1	0	0
USP34	9736	broad.mit.edu	37	2	61544839	61544839	+	Missense_Mutation	SNP	T	T	A			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr2:61544839T>A	ENST00000398571.2	-	23	3308	c.3232A>T	c.(3232-3234)Aac>Tac	p.N1078Y		NM_014709.3	NP_055524.3	Q70CQ2	UBP34_HUMAN	ubiquitin specific peptidase 34	1078					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			autonomic_ganglia(1)|breast(14)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(24)|lung(52)|ovary(8)|prostate(10)|skin(6)|urinary_tract(2)	138			Epithelial(17;0.229)			CGAGCCAAGTTACAGAGATGC	0.398000													25	53					0	0	1	0	0
MRPL13	28998	broad.mit.edu	37	8	121432125	121432125	+	Silent	SNP	T	T	G			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr8:121432125T>G	ENST00000306185.3	-	5	651	c.360A>C	c.(358-360)acA>acC	p.T120T		NM_014078.5	NP_054797.2	Q9BYD1	RM13_HUMAN	mitochondrial ribosomal protein L13	120					translation	mitochondrial large ribosomal subunit	protein binding|structural constituent of ribosome			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(1)|ovary(1)	6	Lung NSC(37;1.69e-07)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			TTTCCATCATTGTTCTTCTGT	0.323000													11	23					0	0	1	0	0
HPS3	84343	broad.mit.edu	37	3	148868448	148868448	+	Missense_Mutation	SNP	A	A	G			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr3:148868448A>G	ENST00000296051.2	+	6	1366	c.1226A>G	c.(1225-1227)tAc>tGc	p.Y409C	HPS3_ENST00000460120.1_Missense_Mutation_p.Y244C	NM_032383.3	NP_115759.2	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3	409						cytoplasm				breast(2)|endometrium(2)|kidney(1)|large_intestine(7)|lung(12)|ovary(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	34			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			GAGGACCCGTACATGGACACC	0.517000									Hermansky-Pudlak syndrome				24	28					0	0	1	0	0
AHNAK2	113146	broad.mit.edu	37	14	105406664	105406664	+	Missense_Mutation	SNP	G	G	C			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr14:105406664G>C	ENST00000333244.5	-	7	15243	c.15124C>G	c.(15124-15126)Cag>Gag	p.Q5042E	AHNAK2_ENST00000557457.1_Missense_Mutation_p.Q40E	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5042						nucleus				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ACGTCTCTCTGTGGCAGGCTG	0.552000													36	54					0	0	1	0	0
HNRNPM	4670	broad.mit.edu	37	19	8550556	8550556	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr19:8550556G>A	ENST00000348943.3	+	15	1359	c.1127G>A	c.(1126-1128)gGc>gAc	p.G376D	HNRNPM_ENST00000325495.4_Missense_Mutation_p.G415D	NM_031203.3	NP_112480.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	415					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						GGGGGTGCCGGCATGGAGCGC	0.672000													4	167					0	0	1	0	0
DUSP27	92235	broad.mit.edu	37	1	167095398	167095400	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr1:167095398_167095400delGAG	ENST00000361200.2	+	6	1196_1198	c.1030_1032delGAG	c.(1030-1032)del	p.E348del	DUSP27_ENST00000443333.1_In_Frame_Del_p.E348del|DUSP27_ENST00000271385.5_In_Frame_Del_p.E348del|DUSP27_ENST00000485151.1_3'UTR			Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27 (putative)	348					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(11)|liver(1)|lung(46)|ovary(5)|prostate(5)|skin(4)|upper_aerodigestive_tract(3)	89						CCTCATAGACGAGGAGGAGGAGG	0.655													2	4	---	---	---	---					
CACNA1E	777	broad.mit.edu	37	1	181680102	181680103	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr1:181680102_181680103delAG	ENST00000526775.1	+	8	1233_1234	c.1068_1069delAG	c.(1066-1071)aaagfs	p.KE356fs	CACNA1E_ENST00000357570.5_Frame_Shift_Del_p.KE307fs|CACNA1E_ENST00000367573.2_Frame_Shift_Del_p.KE356fs|CACNA1E_ENST00000358338.5_Frame_Shift_Del_p.KE307fs|CACNA1E_ENST00000367567.4_5'UTR|CACNA1E_ENST00000360108.3_Frame_Shift_Del_p.KE356fs|CACNA1E_ENST00000367570.1_Frame_Shift_Del_p.KE356fs	NM_001205294.1	NP_001192223.1	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type, alpha 1E subunit	356					energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			NS(2)|breast(9)|central_nervous_system(3)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(6)|kidney(4)|large_intestine(34)|lung(99)|ovary(6)|pancreas(1)|prostate(9)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	204						AATTTGCCAAAGAGAGAGAGAG	0.510													7	79	---	---	---	---					
ANKRD36C	400986	broad.mit.edu	37	2	96525717	96525718	+	Frame_Shift_Ins	INS	-	-	T	rs77057279	by1000genomes	TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr2:96525717_96525718insT	ENST00000456556.1	-	61	3871_3872	c.3787_3788insA	c.(3787-3789)gaafs	p.E1263fs	ANKRD36C_ENST00000419039.2_Frame_Shift_Ins_p.E290fs|ANKRD36C_ENST00000420871.2_Frame_Shift_Ins_p.E514fs					ankyrin repeat domain 36C											breast(1)|endometrium(8)|kidney(5)|lung(4)	18						CTTATTTTTCAGTTTTCGAATT	0.282													2	4	---	---	---	---					
UBQLN3	50613	broad.mit.edu	37	11	5529918	5529920	+	In_Frame_Del	DEL	TGG	TGG	-	rs2234451	byFrequency	TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr11:5529918_5529920delTGG	ENST00000311659.4	-	2	1016_1018	c.869_871delCCA	c.(868-873)agc>a	p.TS290del	HBG2_ENST00000380259.2_Intron	NM_017481.2	NP_059509.1	Q9H347	UBQL3_HUMAN	ubiquilin 3	290			T -> S (in dbSNP:rs2234451).							NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(16)|ovary(4)|prostate(1)|skin(2)	39		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAGGTTGGCTGGTGGTGGTGGT	0.537													7	112	---	---	---	---					
TMEM45B	120224	broad.mit.edu	37	11	129728510	129728510	+	Frame_Shift_Del	DEL	T	T	-			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr11:129728510delT	ENST00000281441.3	+	6	846	c.758delT	c.(757-759)atfs	p.I253fs	TMEM45B_ENST00000524567.1_Frame_Shift_Del_p.I253fs	NM_138788.3	NP_620143.1	Q96B21	TM45B_HUMAN	transmembrane protein 45B	253						integral to membrane				endometrium(2)|kidney(1)|large_intestine(2)|lung(5)|skin(1)|stomach(1)	12	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		GGAGAAATCATTGGAATTCAG	0.478													2	4	---	---	---	---					
GDE1	51573	broad.mit.edu	37	16	19533268	19533268	+	Frame_Shift_Del	DEL	G	G	-			TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr16:19533268delG	ENST00000353258.3	-	1	199	c.19delC	c.(19-21)agfs	p.Q7fs		NM_016641.3	NP_057725.1	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	7					glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(6)|ovary(2)|prostate(1)	13						AGGCCGCCCTGGTCCTCCCAC	0.706													2	4	---	---	---	---					
RAI1	10743	broad.mit.edu	37	17	17696337	17696350	+	Frame_Shift_Del	DEL	ACGCCTAGAGAATT	ACGCCTAGAGAATT	-	rs139160898		TCGA-QR-A6H4-01A-11D-A35D-08	TCGA-QR-A6H4-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7410ae79-39b1-4022-93b3-2adc9437c57c	3d83a509-b5b1-4a16-8a99-05b4f94876b7	g.chr17:17696337_17696350delACGCCTAGAGAATT	ENST00000353383.1	+	3	544_557	c.75_88delACGCCTAGAGAATT	c.(73-90)tcacfs	p.SRLENY25fs	RAI1_ENST00000261641.6_Frame_Shift_Del_p.SRLENY25fs	NM_030665.3	NP_109590.3	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	25						cytoplasm|nucleus	zinc ion binding			breast(1)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(14)|ovary(1)|prostate(1)|skin(5)|urinary_tract(7)	48				READ - Rectum adenocarcinoma(1115;0.0276)		AGGAAACATCACGCCTAGAGAATTACAGGCAGCC	0.556													11	7	---	---	---	---