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
RABGGTA	5875	broad.mit.edu	37	14	24738839	24738839	+	Missense_Mutation	SNP	C	C	A			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr14:24738839C>A	ENST00000399409.3	-	5	972	c.489G>T	c.(487-489)gaG>gaT	p.E163D	RABGGTA_ENST00000216840.6_Missense_Mutation_p.E163D|RABGGTA_ENST00000560777.1_5'UTR|RABGGTA_ENST00000559586.1_5'UTR	NM_004581.5	NP_004572.3	Q92696	PGTA_HUMAN	Rab geranylgeranyltransferase, alpha subunit	163					visual perception		Rab geranylgeranyltransferase activity|zinc ion binding			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(6)	12				GBM - Glioblastoma multiforme(265;0.0184)		TGAAGGCTAGCTCTTCTGCAG	0.592000													3	52					1	1	1	1	0
SPTB	6710	broad.mit.edu	37	14	65260383	65260383	+	Silent	SNP	G	G	C			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr14:65260383G>C	ENST00000389722.3	-	13	2051	c.1998C>G	c.(1996-1998)ggC>ggG	p.G666G	SPTB_ENST00000389720.3_Silent_p.G666G|SPTB_ENST00000389721.5_Silent_p.G666G|SPTB_ENST00000556626.1_Silent_p.G666G|SPTB_ENST00000542895.1_Silent_p.G666G	NM_001024858.2	NP_001020029.1	P11277	SPTB1_HUMAN	spectrin, beta, erythrocytic	666					actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			breast(5)|central_nervous_system(4)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(36)|ovary(8)|pancreas(1)|prostate(4)|skin(10)|urinary_tract(3)	106		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TCAGGTCTTTGCCATAGTCCA	0.537000													3	41					0	0	1	0	0
KIAA1199	57214	broad.mit.edu	37	15	81224299	81224299	+	Silent	SNP	C	C	T			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr15:81224299C>T	ENST00000394685.3	+	22	3131	c.2712C>T	c.(2710-2712)agC>agT	p.S904S	KIAA1199_ENST00000356249.5_Silent_p.S904S|KIAA1199_ENST00000220244.3_Silent_p.S904S|RP11-351M8.2_ENST00000560873.1_RNA			Q8WUJ3	K1199_HUMAN	KIAA1199	904										breast(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						GGCACACCAGCGCCCTGGCCT	0.557000													14	95					0	0	1	0	0
CHEK2P2	646096	broad.mit.edu	37	15	20496770	20496770	+	RNA	SNP	T	T	C	rs3865047	by1000genomes	TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr15:20496770T>C	ENST00000555186.1	+	0	823					NR_038836.1																						TTATAGTGTGTATTTTAATTA	0.353000													6	51					0	0	1	0	0
CAPN9	10753	broad.mit.edu	37	1	230914848	230914848	+	Silent	SNP	C	C	G			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr1:230914848C>G	ENST00000354537.1	+	8	1087	c.1005C>G	c.(1003-1005)ggC>ggG	p.G335G	RP11-99J16__A.2_ENST00000412344.1_RNA|CAPN9_ENST00000366666.2_Silent_p.G298G|RP11-99J16__A.2_ENST00000428480.1_RNA|CAPN9_ENST00000271971.2_Silent_p.G361G|RP11-99J16__A.2_ENST00000452640.1_RNA	NM_016452.1	NP_057536.1	O14815	CAN9_HUMAN	calpain 9	361	Calpain catalytic.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			autonomic_ganglia(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(12)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	25	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				GGGTTCGCGGCTCCACGGCTG	0.582000													5	24					0	0	1	0	0
FTO	79068	broad.mit.edu	37	16	53859931	53859931	+	Silent	SNP	G	G	A			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr16:53859931G>A	ENST00000471389.1	+	3	501	c.279G>A	c.(277-279)ccG>ccA	p.P93P	FTO_ENST00000394647.3_Intron	NM_001080432.2	NP_001073901.1	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	93	Fe2OG dioxygenase domain.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			endometrium(1)|kidney(2)|large_intestine(7)|lung(13)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	29						TGCTCACTCCGGTATCTCGCA	0.493000													5	41					0	0	1	0	0
C2CD3	26005	broad.mit.edu	37	11	73760452	73760452	+	Missense_Mutation	SNP	G	G	C			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr11:73760452G>C	ENST00000334126.7	-	27	5517	c.5291C>G	c.(5290-5292)cCt>cGt	p.P1764R	C2CD3_ENST00000313663.7_Missense_Mutation_p.P1764R			Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1764						centrosome				NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(26)|ovary(4)|pancreas(2)|prostate(1)|skin(3)	64	Breast(11;4.16e-06)					ACTCTCCAAAGGGGAGACAGC	0.483000													4	36					0	0	1	0	0
SIGLEC5	8778	broad.mit.edu	37	19	52130952	52130952	+	Silent	SNP	G	G	A			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr19:52130952G>A	ENST00000222107.4	-	6	1183	c.1045C>T	c.(1045-1047)Ctg>Ttg	p.L349L	SIGLEC5_ENST00000534261.2_Silent_p.L349L|SIGLEC5_ENST00000570106.2_Silent_p.L349L|SIGLEC5_ENST00000429354.3_Silent_p.L349L|SIGLEC5_ENST00000599649.1_Silent_p.L349L			O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5	349					cell adhesion	integral to membrane	sugar binding			NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(9)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	27		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		CTGCAGTGCAGACCCTCAGCC	0.647000													4	7					0	0	1	0	0
ALDH1L2	160428	broad.mit.edu	37	12	105433512	105433512	+	Missense_Mutation	SNP	A	A	G			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr12:105433512A>G	ENST00000258494.9	-	17	2164	c.2024T>C	c.(2023-2025)aTt>aCt	p.I675T	C12orf45_ENST00000548583.1_Intron	NM_001034173.3	NP_001029345.2	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	675	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(13)|prostate(2)|skin(3)|stomach(2)	35						CTGTTTGCCAATAGGAGTGGA	0.393000													7	33					0	0	1	0	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803543	142803543	+	RNA	SNP	C	C	T			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr1:142803543C>T	ENST00000423385.1	-	0	1422																											TGTTGGAATTCCTGATGAATC	0.269000													4	122					0	0	1	0	0
EPHX1	2052	broad.mit.edu	37	1	226026489	226026489	+	Missense_Mutation	SNP	C	C	G			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr1:226026489C>G	ENST00000366837.4	+	4	695	c.499C>G	c.(499-501)Ccc>Gcc	p.P167A	EPHX1_ENST00000272167.5_Missense_Mutation_p.P167A	NM_000120.3	NP_000111.1	P07099	HYEP_HUMAN	epoxide hydrolase 1, microsomal (xenobiotic)	167					aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(7)|ovary(3)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	28	Breast(184;0.197)					CCTGACTGACCCCAAGAACCA	0.572000													6	92					0	0	1	0	0
RASSF1	11186	broad.mit.edu	37	3	50369084	50369084	+	Silent	SNP	T	T	A			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr3:50369084T>A	ENST00000359365.4	-	4	772	c.666A>T	c.(664-666)gcA>gcT	p.A222A	RASSF1_ENST00000395126.3_Silent_p.A71A|RASSF1_ENST00000357043.2_Silent_p.A226A|RASSF1_ENST00000327761.3_Silent_p.A152A	NM_001206957.1|NM_007182.4|NM_170714.1	NP_001193886.1|NP_009113.3|NP_733832.1	Q9NS23	RASF1_HUMAN	Ras association (RalGDS/AF-6) domain family member 1	226	Ras-associating.				cell cycle arrest|negative regulation of cell cycle arrest|positive regulation of protein ubiquitination|protein stabilization|Ras protein signal transduction|response to DNA damage stimulus	microtubule|microtubule cytoskeleton|microtubule organizing center|nucleus|spindle pole	identical protein binding|protein binding|protein N-terminus binding|zinc ion binding			lung(2)|ovary(1)|skin(1)|urinary_tract(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000278)|OV - Ovarian serous cystadenocarcinoma(275;0.0015)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TGACTTCACGTGCCCTTGTGC	0.617000													21	50					0	0	1	0	0
AIM1	202	broad.mit.edu	37	6	106975253	106975253	+	Missense_Mutation	SNP	G	G	T			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr6:106975253G>T	ENST00000369066.3	+	5	3749	c.3262G>T	c.(3262-3264)Ggt>Tgt	p.G1088C		NM_001624.2	NP_001615.1	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1088	Beta/gamma crystallin 'Greek key' 2.						sugar binding			breast(8)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(7)|large_intestine(13)|lung(20)|ovary(5)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	69	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		GGAACTCTCTGGTCTCTGGGG	0.428000													8	102					0.000274275	0.000285703	1	1	0
HRAS	3265	broad.mit.edu	37	11	533875	533875	+	Missense_Mutation	SNP	G	G	T	rs28933406		TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr11:533875G>T	ENST00000417302.1	-	3	368	c.181C>A	c.(181-183)Cag>Aag	p.Q61K	HRAS_ENST00000451590.1_Missense_Mutation_p.Q61K|HRAS_ENST00000468682.2_5'UTR|HRAS_ENST00000397594.1_Missense_Mutation_p.Q61K|HRAS_ENST00000397596.2_Missense_Mutation_p.Q61K|HRAS_ENST00000311189.7_Missense_Mutation_p.Q61K	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.Q61K(61)|p.Q61R(1)|p.Q61E(1)		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)	TACTCCTCCTGGCCGGCGGTA	0.597000		6	Mis		"""infrequent sarcomas, rare other types"""	"""rhadomyosarcoma, ganglioneuroblastoma, bladder"""			Costello syndrome	HNSCC(11;0.0054)			20	31					3.8784e-16	4.21566e-16	1	1	0
C2orf73	129852	broad.mit.edu	37	2	54587376	54587376	+	Missense_Mutation	SNP	G	G	A			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr2:54587376G>A	ENST00000398634.2	+	5	583	c.541G>A	c.(541-543)Ggc>Agc	p.G181S	C2orf73_ENST00000491538.1_3'UTR|C2orf73_ENST00000405749.1_Intron	NM_001100396.1	NP_001093866.1	Q8N5S3	CB073_HUMAN	chromosome 2 open reading frame 73	181										breast(2)	2						GATAAAACCAGGCAGTAGGCC	0.453000													3	6					0	0	1	0	0
COL2A1	1280	broad.mit.edu	37	12	48387610	48387610	+	Silent	SNP	C	C	T			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr12:48387610C>T	ENST00000380518.3	-	14	1070	c.906G>A	c.(904-906)gcG>gcA	p.A302A	COL2A1_ENST00000337299.6_Silent_p.A233A	NM_001844.4|NM_033150.2	NP_001835.3|NP_149162.2	P02458	CO2A1_HUMAN	collagen, type II, alpha 1	302	Triple-helical region.		Missing (in STL1).		axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			NS(1)|breast(1)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(9)|lung(25)|ovary(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(3)	64		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CAGGAGCACCCGCCTCTCCCT	0.542000													6	51					0	0	1	0	0
COPS5	10987	broad.mit.edu	37	8	67971510	67971510	+	Missense_Mutation	SNP	G	G	C			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr8:67971510G>C	ENST00000517736.1	-	2	683	c.122C>G	c.(121-123)aCc>aGc	p.T41S	COPS5_ENST00000357849.4_Missense_Mutation_p.T105S			Q92905	CSN5_HUMAN	COP9 signalosome subunit 5	105					cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity	p.T105I(1)		endometrium(2)|kidney(1)|large_intestine(1)|lung(6)|ovary(1)|skin(3)	14	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)			ATTTACTCGGGTTTCAGTGCC	0.418000													4	76					0	0	1	0	0
KRTAP4-8	728224	broad.mit.edu	37	17	39254054	39254054	+	Missense_Mutation	SNP	A	A	T	rs76270529	by1000genomes	TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr17:39254054A>T	ENST00000333822.4	-	1	339	c.283T>A	c.(283-285)Tgc>Agc	p.C95S		NM_031960.2	NP_114166.1	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4-8	95	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].					keratin filament		p.C95S(4)		endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|prostate(1)	11						ctggagatgcagcagcTAGGG	0.677000													3	32					0	0	1	0	0
COL15A1	1306	broad.mit.edu	37	9	101798452	101798452	+	Splice_Site	SNP	G	G	A			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr9:101798452G>A	ENST00000375001.3	+	20	2713	c.2289_splice	c.e20-1	p.G764_splice		NM_001855.3	NP_001846.3	P39059	COFA1_HUMAN	collagen, type XV, alpha 1	764	Triple-helical region 3 (COL3).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			NS(1)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(20)|liver(1)|lung(42)|ovary(6)|prostate(5)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	107		Acute lymphoblastic leukemia(62;0.0562)				ATTTTTCCAGGGTCTCAAAGG	0.483000													3	26					0	0	1	0	0
ETV6	2120	broad.mit.edu	37	12	12022421	12022421	+	Missense_Mutation	SNP	T	T	C			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr12:12022421T>C	ENST00000396373.4	+	5	801	c.527T>C	c.(526-528)aTt>aCt	p.I176T		NM_001987.4	NP_001978.1	P41212	ETV6_HUMAN	ets variant 6	176						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/JAK2(11)|ETV6/ITPR2(2)|ETV6/NTRK3(238)	breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(15)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	45		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				CCTCCCACCATTGAACTGTTG	0.582000			T	"""NTRK3, RUNX1, PDGFRB, ABL1, MN1, ABL2, FACL6, CHIC2, ARNT, JAK2, EVI1, CDX2, STL, HLXB9, MDS2, PER1, SYK, TTL, FGFR3, PAX5"""	"""congenital fibrosarcoma, multiple leukemia and lymphoma,  secretory breast, MDS, ALL"""								8	157					0	0	1	0	0
MUC7	4589	broad.mit.edu	37	4	71346978	71346978	+	Missense_Mutation	SNP	T	T	C			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr4:71346978T>C	ENST00000413702.1	+	4	805	c.517T>C	c.(517-519)Tct>Cct	p.S173P	MUC7_ENST00000456088.1_Missense_Mutation_p.S173P|MUC7_ENST00000304887.5_Missense_Mutation_p.S173P|MUC7_ENST00000514512.1_3'UTR	NM_001145006.1	NP_001138478.1	Q8TAX7	MUC7_HUMAN	mucin 7, secreted	173	Thr-rich.					extracellular region	protein binding	p.S173P(3)		central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(2)|lung(23)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	42			Lung(101;0.211)			ACCCACACCTTCTGCAACTAC	0.522000													4	83					0	0	1	0	0
SRGAP2-AS1	100873165	broad.mit.edu	37	1	121137791	121137793	+	RNA	DEL	CCA	CCA	-	rs28552466	by1000genomes	TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr1:121137791_121137793delCCA	ENST00000437515.1	-	0	329																											ATTTCGCCCTCCACCGCCGCCGC	0.631													3	5	---	---	---	---					
NRM	11270	broad.mit.edu	37	6	30657192	30657192	+	Frame_Shift_Del	DEL	G	G	-			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr6:30657192delG	ENST00000259953.4	-	4	719	c.368delC	c.(367-369)ctfs	p.P123fs	NRM_ENST00000470733.1_5'UTR|NRM_ENST00000376420.5_Intron|NRM_ENST00000376421.5_Frame_Shift_Del_p.P123fs	NM_001270707.1	NP_001257636.1	Q8IXM6	NRM_HUMAN	nurim (nuclear envelope membrane protein)	123						integral to membrane|nuclear inner membrane				large_intestine(1)|lung(2)	3						CCACAACACAGGGCCTTTGGG	0.607													2	4	---	---	---	---					
FJX1	24147	broad.mit.edu	37	11	35640205	35640207	+	In_Frame_Del	DEL	CGC	CGC	-			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr11:35640205_35640207delCGC	ENST00000317811.4	+	1	471_473	c.21_23delCGC	c.(19-24)ggc>gg	p.GA7del		NM_014344.3	NP_055159.2	Q86VR8	FJX1_HUMAN	four jointed box 1 (Drosophila)	7						extracellular space				lung(1)|urinary_tract(1)	2	all_cancers(35;0.177)|all_lung(20;0.0238)|Lung NSC(22;0.0494)|all_epithelial(35;0.0739)	all_hematologic(20;0.107)				GGATGCGGGGCGCCGCCGCCACC	0.818													2	4	---	---	---	---					
RBL2	5934	broad.mit.edu	37	16	53476671	53476671	+	Frame_Shift_Del	DEL	T	T	-			TCGA-SP-A6QF-01A-12D-A35I-08	TCGA-SP-A6QF-10A-21D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	88156dd0-256c-499d-ba23-d9c2128f6726	caa96f11-e971-4cb7-9d98-7d55335260ed	g.chr16:53476671delT	ENST00000262133.6	+	3	610	c.473delT	c.(472-474)gtfs	p.V158fs		NM_005611.3	NP_005602.3	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	158					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(17)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45						AACTTCACTGTTTCTGCTGTA	0.388													18	28	---	---	---	---