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
MAP3K1	4214	broad.mit.edu	37	5	56168713	56168713	+	Missense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr5:56168713G>A	ENST00000399503.3	+	9	1567	c.1567G>A	c.(1567-1569)Gta>Ata	p.V523I		NM_005921.1	NP_005912.1	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase 1, E3 ubiquitin protein ligase	523					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			NS(1)|breast(19)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(11)|ovary(1)|skin(3)|urinary_tract(1)	57		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		GCAGCAAACCGTACAGCAGCA	0.413000													3	34					0	0	1	0	0
PPP4R1	9989	broad.mit.edu	37	18	9577161	9577161	+	Missense_Mutation	SNP	C	C	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr18:9577161C>A	ENST00000400556.3	-	10	1020	c.947G>T	c.(946-948)gGa>gTa	p.G316V	PPP4R1_ENST00000580583.1_5'UTR|PPP4R1_ENST00000400555.3_Missense_Mutation_p.G299V	NM_001042388.2	NP_001035847.1	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	316					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			large_intestine(1)|skin(2)	3						TATGAAAGGTCCCAGAGACTG	0.338000													6	40					0.00116845	0.00123718	1	1	0
ZNF347	84671	broad.mit.edu	37	19	53644386	53644386	+	Silent	SNP	T	T	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr19:53644386T>A	ENST00000452676.2	-	5	2124	c.1698A>T	c.(1696-1698)ggA>ggT	p.G566G	ZNF347_ENST00000334197.7_Silent_p.G565G|ZNF347_ENST00000601804.1_Intron|ZNF347_ENST00000601469.2_Silent_p.G566G	NM_001172674.1	NP_001166145.1	Q96SE7	ZN347_HUMAN	zinc finger protein 347	565					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|prostate(3)|skin(1)	23				GBM - Glioblastoma multiforme(134;0.0179)		AAGGTTTTTCTCCAGTATGGA	0.408000													5	183					0	0	1	0	0
SLC19A3	80704	broad.mit.edu	37	2	228564080	228564080	+	Silent	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr2:228564080G>A	ENST00000258403.3	-	3	422	c.351C>T	c.(349-351)acC>acT	p.T117T	SLC19A3_ENST00000541617.1_Silent_p.T113T|SLC19A3_ENST00000409287.1_Intron	NM_025243.3	NP_079519.1	Q9BZV2	S19A3_HUMAN	solute carrier family 19 (thiamine transporter), member 3	117					thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity	p.T117T(1)		breast(1)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(5)|lung(8)|ovary(2)|skin(3)	30		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	CCTCGGCGGCGGTGACCATCC	0.562000													12	46					0	0	1	0	0
BMP10	27302	broad.mit.edu	37	2	69092860	69092860	+	Missense_Mutation	SNP	T	T	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr2:69092860T>A	ENST00000295379.1	-	2	1336	c.1178A>T	c.(1177-1179)aAg>aTg	p.K393M		NM_014482.1	NP_055297.1	O95393	BMP10_HUMAN	bone morphogenetic protein 10	393					activin receptor signaling pathway|adult heart development|atrial cardiac muscle tissue morphogenesis|BMP signaling pathway|cardiac muscle cell proliferation|heart trabecula formation|negative regulation of cardiac muscle hypertrophy|negative regulation of cell growth|negative regulation of endothelial cell migration|Notch signaling pathway|pathway-restricted SMAD protein phosphorylation|positive regulation of cardiac muscle cell proliferation|positive regulation of cardiac muscle hypertrophy|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent|sarcomere organization|ventricular cardiac muscle cell development|ventricular cardiac muscle tissue morphogenesis	cell surface|extracellular space|Z disc	cytokine activity|growth factor activity|receptor serine/threonine kinase binding			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(15)|ovary(2)	27						GGGCTCTAGCTTTGTGGGCAC	0.498000													4	96					0	0	1	0	0
COMMD8	54951	broad.mit.edu	37	4	47455150	47455150	+	Missense_Mutation	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr4:47455150C>T	ENST00000381571.4	-	4	524	c.457G>A	c.(457-459)Gta>Ata	p.V153I		NM_017845.3	NP_060315.1	Q9NX08	COMD8_HUMAN	COMM domain containing 8	153	COMM.						protein binding			large_intestine(2)|lung(5)|prostate(1)	8						TAAGGTTTTACTTCACCATTT	0.353000													7	59					0	0	1	0	0
MAN2B2	23324	broad.mit.edu	37	4	6600070	6600070	+	Missense_Mutation	SNP	C	C	T	rs138386873		TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr4:6600070C>T	ENST00000285599.3	+	9	1430	c.1394C>T	c.(1393-1395)gCg>gTg	p.A465V	MAN2B2_ENST00000504248.1_Missense_Mutation_p.A414V	NM_015274.1	NP_056089.1	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	465					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			breast(2)|cervix(2)|endometrium(4)|kidney(1)|large_intestine(3)|lung(9)|ovary(4)|prostate(2)|skin(2)|urinary_tract(1)	30						GCACCCATGGCGGCCAGCTCC	0.652000													6	18					0	0	1	0	0
NBPF1	55672	broad.mit.edu	37	1	16895621	16895621	+	Missense_Mutation	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:16895621C>T	ENST00000430580.2	-	23	3448	c.2561G>A	c.(2560-2562)gGc>gAc	p.G854D	NBPF1_ENST00000287968.8_3'UTR|NBPF1_ENST00000432949.1_Intron|NBPF1_ENST00000420031.2_3'UTR	NM_017940.3	NP_060410.2	Q3BBV0	NBPF1_HUMAN	neuroblastoma breakpoint family, member 1	854	NBPF 4.					cytoplasm									UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GTGAAATGTGCCGCTGTAAGA	0.498000													6	906					0	0	1	0	0
NR4A3	0	broad.mit.edu	37	9	102590458	102590458	+	Missense_Mutation	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr9:102590458C>T	ENST00000330847.1	+	2	211	c.167C>T	c.(166-168)aCt>aTt	p.T56I	NR4A3_ENST00000395097.2_Missense_Mutation_p.T45I|NR4A3_ENST00000338488.4_Missense_Mutation_p.T45I			Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	45					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		TCF12/NR4A3(2)|TAF15/NR4A3(33)|EWSR1/NR4A3(146)|TFG/NR4A3(2)				Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CTTGGCAGCACTGAGATCACG	0.567000			T	EWSR1	extraskeletal myxoid chondrosarcoma								4	49					0	0	1	0	0
NBPF1	55672	broad.mit.edu	37	1	16918653	16918653	+	Splice_Site	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:16918653C>T	ENST00000430580.2	-	6	853		c.e6+1			NM_017940.3	NP_060410.2	Q3BBV0	NBPF1_HUMAN	neuroblastoma breakpoint family, member 1							cytoplasm									UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCTTAACTTACTGTTGTGAAA	0.418000													3	24					0	0	1	0	0
MFSD11	79157	broad.mit.edu	37	17	74738072	74738072	+	Silent	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr17:74738072C>T	ENST00000588460.1	+	4	2324	c.282C>T	c.(280-282)atC>atT	p.I94I	MFSD11_ENST00000593181.1_Silent_p.I94I|MFSD11_ENST00000590514.1_Silent_p.I94I|MFSD11_ENST00000586622.1_Silent_p.I94I|MFSD11_ENST00000355954.3_Silent_p.I94I|MFSD11_ENST00000336509.4_Silent_p.I94I	NM_001242534.1	NP_001229463.1	O43934	MFS11_HUMAN	major facilitator superfamily domain containing 11	94						integral to membrane				endometrium(1)|kidney(2)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)	17						CCGTTTTCATCCAGCCTTTCC	0.398000													4	168					0	0	1	0	0
DPPA3P2	0	broad.mit.edu	37	14	36840970	36840970	+	RNA	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr14:36840970G>A	ENST00000557188.1	+	0	601																											AACAAACAAGGAGCCTAAGGG	0.438000													8	77					0	0	1	0	0
MAT1A	4143	broad.mit.edu	37	10	82036308	82036308	+	Missense_Mutation	SNP	C	C	G			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr10:82036308C>G	ENST00000372213.3	-	6	852	c.592G>C	c.(592-594)Gtg>Ctg	p.V198L		NM_000429.2	NP_000420.1	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	198					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity			endometrium(4)|large_intestine(7)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	26			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	TGGATGCGCACAGGGATGACT	0.577000													9	119					0	0	1	0	0
MIR329-1	0	broad.mit.edu	37	14	101493161	101493161	+	RNA	SNP	A	A	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr14:101493161A>T	ENST00000385028.1	+	0	40					NR_029967.1																						TGTTTCTTTAATGAGGACGAA	0.468000													4	129					0	0	1	0	0
TRPA1	8989	broad.mit.edu	37	8	72973925	72973925	+	Silent	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr8:72973925C>T	ENST00000262209.4	-	7	1086	c.879G>A	c.(877-879)tcG>tcA	p.S293S		NM_007332.2	NP_015628.2	O75762	TRPA1_HUMAN	transient receptor potential cation channel, subfamily A, member 1	293						integral to plasma membrane				NS(1)|breast(2)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(26)|lung(44)|ovary(4)|prostate(6)|stomach(1)	98			Epithelial(68;0.223)		Menthol(DB00825)	CAGAATAGGACGATATCATCA	0.423000													5	47					0	0	1	0	0
NOTCH2	4853	broad.mit.edu	37	1	120468195	120468195	+	Missense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:120468195G>A	ENST00000256646.2	-	25	4463	c.4244C>T	c.(4243-4245)aCg>aTg	p.T1415M		NM_024408.3	NP_077719.2	Q04721	NOTC2_HUMAN	notch 2	1415					anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			breast(4)|central_nervous_system(6)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(9)|kidney(9)|large_intestine(19)|liver(1)|lung(57)|ovary(4)|pancreas(1)|prostate(7)|skin(24)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	158	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGGGGGTGCCGTGTAGAGTTC	0.642000			"""N, F, Mis"""		"""marginal zone lymphoma, DLBCL"""				Alagille Syndrome				4	56					0	0	1	0	0
COL11A1	1301	broad.mit.edu	37	1	103405948	103405948	+	Nonsense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:103405948G>A	ENST00000358392.2	-	43	3672	c.3355C>T	c.(3355-3357)Caa>Taa	p.Q1119*	COL11A1_ENST00000353414.4_Nonsense_Mutation_p.Q1068*|COL11A1_ENST00000512756.1_Nonsense_Mutation_p.Q991*|COL11A1_ENST00000370096.3_Nonsense_Mutation_p.Q1107*	NM_080629.2	NP_542196.2	P12107	COBA1_HUMAN	collagen, type XI, alpha 1	1107	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging	p.Q1119E(1)		NS(3)|biliary_tract(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(17)|kidney(8)|large_intestine(28)|lung(157)|ovary(6)|pancreas(2)|prostate(6)|skin(9)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(1)	258		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		ACAGGACCTTGAACTCCATCT	0.493000													7	25					0	0	1	0	0
PLA2R1	0	broad.mit.edu	37	2	160833917	160833917	+	Missense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr2:160833917G>A	ENST00000283243.7	-	15	2485	c.2279C>T	c.(2278-2280)tCg>tTg	p.S760L	PLA2R1_ENST00000392771.1_Missense_Mutation_p.S760L	NM_001195641.1|NM_007366.4	NP_001182570.1|NP_031392.3	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1, 180kDa	760	C-type lectin 4.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding		PLA2R1/RBMS1(2)	central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(17)|lung(20)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(1)|upper_aerodigestive_tract(1)	60						GTCTAAAAACGAAGAGACAAC	0.388000													5	77					0	0	1	0	0
LRIT2	340745	broad.mit.edu	37	10	85981739	85981739	+	Silent	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr10:85981739G>A	ENST00000372113.4	-	3	1595	c.1590C>T	c.(1588-1590)gaC>gaT	p.D530D	LRIT2_ENST00000538192.1_Silent_p.D540D	NM_001017924.2	NP_001017924.1	A6NDA9	LRIT2_HUMAN	leucine-rich repeat, immunoglobulin-like and transmembrane domains 2	530						integral to membrane				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(13)|ovary(3)|prostate(6)|urinary_tract(1)	32						GCCCTTCACCGTCATCACAGA	0.587000													5	69					0	0	1	0	0
VASN	114990	broad.mit.edu	37	16	4432517	4432517	+	Missense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr16:4432517G>A	ENST00000304735.3	+	2	1794	c.1639G>A	c.(1639-1641)Gag>Aag	p.E547K	CORO7_ENST00000251166.4_Intron|CORO7_ENST00000537233.2_Intron|CORO7-PAM16_ENST00000572467.1_Intron|CORO7_ENST00000423908.2_Intron|CORO7_ENST00000574025.1_Intron|CORO7_ENST00000539968.1_Intron	NM_138440.2	NP_612449.2	Q6EMK4	VASN_HUMAN	vasorin	547	Fibronectin type-III.					extracellular region|integral to membrane				breast(1)|lung(3)|prostate(1)|skin(1)	6						GCCGGAGGGCGAGGAGGCCTG	0.711000													3	4					0	0	1	0	0
ZNF846	162993	broad.mit.edu	37	19	9869005	9869005	+	Missense_Mutation	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr19:9869005C>T	ENST00000397902.2	-	6	1161	c.748G>A	c.(748-750)Gga>Aga	p.G250R	ZNF846_ENST00000586293.1_3'UTR|ZNF846_ENST00000588267.1_Missense_Mutation_p.G121R|ZNF846_ENST00000592859.1_Missense_Mutation_p.G121R	NM_001077624.1	NP_001071092.1	Q147U1	ZN846_HUMAN	zinc finger protein 846	250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	22						GGCTTCTCTCCACTGTGAATT	0.383000													7	62					0	0	1	0	0
ANK2	287	broad.mit.edu	37	4	114279456	114279456	+	Missense_Mutation	SNP	G	G	A	rs141013157	by1000genomes	TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr4:114279456G>A	ENST00000357077.4	+	38	9735	c.9682G>A	c.(9682-9684)Gtg>Atg	p.V3228M	ANK2_ENST00000510275.2_Intron|ANK2_ENST00000264366.6_Missense_Mutation_p.V3195M|ANK2_ENST00000509550.1_Intron|ANK2_ENST00000506722.1_Intron|ANK2_ENST00000394537.3_Intron	NM_001148.4	NP_001139.3	Q01484	ANK2_HUMAN	ankyrin 2, neuronal	3195					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(54)|liver(2)|lung(112)|ovary(8)|pancreas(1)|prostate(7)|skin(11)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(10)	248		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCTCCCCACCGTGCAAACGGG	0.488000													5	36					0	0	1	0	0
IGKV2D-29	0	broad.mit.edu	37	2	89986987	89986987	+	RNA	SNP	A	A	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr2:89986987A>T	ENST00000491977.1	+	0	298																											GTTCAGTGGCAGCGGGTCAGG	0.512000													6	59					0	0	1	0	0
TGFBRAP1	9392	broad.mit.edu	37	2	105900818	105900818	+	Missense_Mutation	SNP	A	A	G			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr2:105900818A>G	ENST00000393359.2	-	5	1502	c.1076T>C	c.(1075-1077)aTa>aCa	p.I359T	TGFBRAP1_ENST00000258449.1_Missense_Mutation_p.I359T			Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor associated protein 1	359					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(5)|lung(11)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	31						TGCAAACTGTATAAATCCCGC	0.463000													11	136					0	0	1	0	0
CPT2	1376	broad.mit.edu	37	1	53676058	53676058	+	Missense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:53676058G>A	ENST00000371486.3	+	4	1227	c.712G>A	c.(712-714)Gac>Aac	p.D238N		NM_000098.2	NP_000089.1	P23786	CPT2_HUMAN	carnitine palmitoyltransferase 2	238					carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	15					L-Carnitine(DB00583)|Perhexiline(DB01074)	CTTCACTGATGACAAGGCCAG	0.473000													6	42					0	0	1	0	0
FAM199X	139231	broad.mit.edu	37	X	103420367	103420367	+	Silent	SNP	A	A	G			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chrX:103420367A>G	ENST00000493442.1	+	2	427	c.261A>G	c.(259-261)tcA>tcG	p.S87S		NM_207318.3	NP_997201.1	Q6PEV8	F199X_HUMAN	family with sequence similarity 199, X-linked	87										breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(1)	11						AGCTGTTTTCATCTGTGTCTG	0.423000													4	38					0	0	1	0	0
ATP2B2	491	broad.mit.edu	37	3	10491116	10491116	+	Missense_Mutation	SNP	G	G	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr3:10491116G>A	ENST00000397077.1	-	4	687	c.112C>T	c.(112-114)Cgg>Tgg	p.R38W	ATP2B2_ENST00000383800.4_Missense_Mutation_p.R38W|ATP2B2_ENST00000343816.4_Missense_Mutation_p.R38W|ATP2B2_ENST00000352432.4_Missense_Mutation_p.R38W|ATP2B2_ENST00000360273.2_Missense_Mutation_p.R38W			Q01814	AT2B2_HUMAN	ATPase, Ca++ transporting, plasma membrane 2	38					ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|calcium ion binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(7)|large_intestine(19)|lung(29)|ovary(5)|prostate(2)|skin(4)|stomach(2)|urinary_tract(2)	74						TCAGTGCCCCGCAGCTCCATG	0.552000													5	42					0	0	1	0	0
MS4A5	64232	broad.mit.edu	37	11	60201358	60201358	+	Missense_Mutation	SNP	A	A	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr11:60201358A>T	ENST00000300190.2	+	4	546	c.460A>T	c.(460-462)Agt>Tgt	p.S154C	MS4A5_ENST00000534071.1_3'UTR	NM_023945.2	NP_076434.2	Q9H3V2	MS4A5_HUMAN	membrane-spanning 4-domains, subfamily A, member 5	154						integral to membrane	receptor activity			large_intestine(7)|lung(7)|ovary(1)|skin(1)	16						TCACCAAAATAGTCAGTGTAA	0.363000													11	64					0	0	1	0	0
C1orf173	127254	broad.mit.edu	37	1	75038795	75038795	+	Missense_Mutation	SNP	C	C	T	rs140579756		TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:75038795C>T	ENST00000326665.5	-	14	2817	c.2599G>A	c.(2599-2601)Gct>Act	p.A867T	C1orf173_ENST00000433746.2_5'UTR	NM_001002912.4	NP_001002912.4	Q5RHP9	CA173_HUMAN	chromosome 1 open reading frame 173	867	Glu-rich.									NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(23)|lung(123)|ovary(3)|prostate(10)|skin(10)|stomach(1)|upper_aerodigestive_tract(5)	184						AGACCCACAGCATCTTTTGCT	0.537000													8	114					0	0	1	0	0
FLG2	388698	broad.mit.edu	37	1	152327338	152327338	+	Missense_Mutation	SNP	C	C	T			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr1:152327338C>T	ENST00000388718.5	-	3	2996	c.2924G>A	c.(2923-2925)gGa>gAa	p.G975E	FLG-AS1_ENST00000445097.1_RNA|FLG-AS1_ENST00000392688.2_RNA	NM_001014342.2	NP_001014364.1	Q5D862	FILA2_HUMAN	filaggrin family member 2	975	Ser-rich.						calcium ion binding|structural molecule activity			NS(2)|breast(7)|cervix(3)|endometrium(11)|kidney(9)|large_intestine(24)|liver(1)|lung(85)|ovary(12)|pancreas(1)|prostate(6)|skin(17)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	188	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCATGTTGTCCAAAGCCAGA	0.493000													9	245					0	0	1	0	0
RYR3	6263	broad.mit.edu	37	15	34093025	34093025	+	Silent	SNP	G	G	C			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr15:34093025G>C	ENST00000389232.4	+	68	9955	c.9885G>C	c.(9883-9885)gtG>gtC	p.V3295V	RYR3_ENST00000415757.3_Silent_p.V3295V	NM_001036.3	NP_001027.3	Q15413	RYR3_HUMAN	ryanodine receptor 3	3295					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCCGCATGGTGGCAGAAGTCT	0.433000													7	36					0	0	1	0	0
AC008103.5	0	broad.mit.edu	37	22	18844888	18844888	+	RNA	SNP	A	A	G			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr22:18844888A>G	ENST00000412938.1	+	0	3138																											GCTCACGGAAATACAGCTTCA	0.587000													5	30					0	0	1	0	0
NR4A3	0	broad.mit.edu	37	9	102590448	102590448	+	Missense_Mutation	SNP	C	C	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr9:102590448C>A	ENST00000330847.1	+	2	201	c.157C>A	c.(157-159)Ctt>Att	p.L53I	NR4A3_ENST00000395097.2_Missense_Mutation_p.L42I|NR4A3_ENST00000338488.4_Missense_Mutation_p.L42I			Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	42					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		TCF12/NR4A3(2)|TAF15/NR4A3(33)|EWSR1/NR4A3(146)|TFG/NR4A3(2)				Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				GACCATGGACCTTGGCAGCAC	0.572000			T	EWSR1	extraskeletal myxoid chondrosarcoma								6	46					0.248553	0.248553	1	1	0
GBA3	57733	broad.mit.edu	37	4	22729111	22729111	+	RNA	SNP	C	C	A			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr4:22729111C>A	ENST00000508166.1	+	0	160				GBA3_ENST00000503442.1_RNA|GBA3_ENST00000511446.1_RNA	NM_020973.4	NP_066024.1	Q9H227	GBA3_HUMAN	glucosidase, beta, acid 3 (gene/pseudogene)						glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity			breast(1)|kidney(2)|large_intestine(4)|lung(20)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	33						GAACACTCCACATACTTGACA	0.488000													4	122					0.150653	0.154958	1	1	0
EFNA5	1946	broad.mit.edu	37	5	107006189	107006189	+	Splice_Site	DEL	C	C	-			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr5:107006189delC	ENST00000333274.6	-	1	407		c.e1+1		EFNA5_ENST00000509503.1_Splice_Site	NM_001962.2	NP_001953.1	P52803	EFNA5_HUMAN	ephrin-A5						cell-cell signaling	anchored to plasma membrane|caveola|extracellular space	ephrin receptor binding			large_intestine(6)	6		all_cancers(142;5.15e-06)|all_epithelial(76;4.39e-07)|Prostate(80;0.00726)|Lung NSC(167;0.0736)|Ovarian(225;0.0797)|all_lung(232;0.0854)|Colorectal(57;0.241)		Epithelial(69;1.25e-12)|OV - Ovarian serous cystadenocarcinoma(64;1.32e-11)|BRCA - Breast invasive adenocarcinoma(61;0.0376)|COAD - Colon adenocarcinoma(37;0.109)		TATCGGCTTACCTGGGGTTGC	0.692													2	4	---	---	---	---					
MYH16	0	broad.mit.edu	37	7	98845201	98845201	+	RNA	DEL	C	C	-			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr7:98845201delC	ENST00000453194.1	+	0	272																											TGACCATCTTCCCTCCCTCCC	0.572													2	4	---	---	---	---					
KMT2D	8085	broad.mit.edu	37	12	49434129	49434129	+	Frame_Shift_Del	DEL	G	G	-			TCGA-YL-A8SI-01A-11D-A41K-08	TCGA-YL-A8SI-10A-01D-A41N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0b05122e-49c2-470c-94e2-c5d5199dfa3e	61a6c1de-8124-49df-af36-5bfb52d1b004	g.chr12:49434129delG	ENST00000301067.7	-	31	7423	c.7424delC	c.(7423-7425)ctfs	p.P2475fs		NM_003482.3	NP_003473.3			lysine (K)-specific methyltransferase 2D																		GGCAACTTCAGGGGGCTGGGG	0.662													7	47	---	---	---	---