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
PSMA4	5685	broad.mit.edu	37	15	78837982	78837982	+	Missense_Mutation	SNP	G	G	A			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr15:78837982G>A	ENST00000044462.7	+	7	533	c.383G>A	c.(382-384)cGt>cAt	p.R128H	PSMA4_ENST00000558094.1_Missense_Mutation_p.R40H|PSMA4_ENST00000560217.1_Missense_Mutation_p.R97H|PSMA4_ENST00000559082.1_Missense_Mutation_p.R128H|PSMA4_ENST00000558341.1_Intron|PSMA4_ENST00000557929.1_3'UTR|PSMA4_ENST00000413382.2_Missense_Mutation_p.R57H|PSMA4_ENST00000558281.1_Missense_Mutation_p.R128H	NM_002789.4	NP_002780.1	P25789	PSA4_HUMAN	proteasome (prosome, macropain) subunit, alpha type, 4	128					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity			kidney(2)|large_intestine(2)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	9						AAAGGAAAACGTCCCTTTGGT	0.408000													46	62					0	0	1	0	0
ZNF181	339318	broad.mit.edu	37	19	35232275	35232275	+	Missense_Mutation	SNP	T	T	C			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr19:35232275T>C	ENST00000392232.3	+	6	1289	c.1121T>C	c.(1120-1122)tTt>tCt	p.F374S	ZNF181_ENST00000459757.1_Missense_Mutation_p.F329S|ZNF181_ENST00000492450.1_Missense_Mutation_p.F330S			Q2M3W8	ZN181_HUMAN	zinc finger protein 181	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.F266S(1)		endometrium(6)|kidney(2)|large_intestine(1)|lung(7)|ovary(2)|prostate(3)|skin(1)	22	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GGAAAGTCTTTTAGTCGTGTG	0.398000													4	76					0	0	1	0	0
HLA-DRB6	0	broad.mit.edu	37	6	32522570	32522570	+	RNA	SNP	G	G	A	rs35923382	by1000genomes	TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr6:32522570G>A	ENST00000411500.1	-	0	636					NR_001298.1																						GGGTCTGGAAGGTCCAATCTC	0.532000													6	33					0	0	1	0	0
KRT31	3881	broad.mit.edu	37	17	39551564	39551564	+	Missense_Mutation	SNP	G	G	A	rs147688319		TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr17:39551564G>A	ENST00000251645.2	-	5	861	c.809C>T	c.(808-810)gCg>gTg	p.A270V		NM_002277.2	NP_002268.2	Q15323	K1H1_HUMAN	keratin 31	270	Coil 2.|Rod.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton	p.A270V(1)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(6)|lung(7)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	31		Breast(137;0.000496)				GATGATCTCCGCCTGGTAGGA	0.592000													5	120					0	0	1	0	0
INSL6	11172	broad.mit.edu	37	9	5185468	5185468	+	Silent	SNP	G	G	A	rs141353328	byFrequency	TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr9:5185468G>A	ENST00000381641.3	-	1	200	c.135C>T	c.(133-135)tgC>tgT	p.C45C		NM_007179.2	NP_009110.2	Q9Y581	INSL6_HUMAN	insulin-like 6	45						extracellular region	hormone activity	p.C45C(1)		breast(2)|endometrium(3)|kidney(1)|large_intestine(7)|lung(2)	15	all_hematologic(13;0.137)	Breast(48;0.147)|Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0128)|Lung(218;0.145)		TGGCATGGCCGCAGAGTTTTT	0.542000													4	84					0	0	1	0	0
RP11-1166P10.6	0	broad.mit.edu	37	16	32070612	32070612	+	RNA	SNP	A	A	C			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr16:32070612A>C	ENST00000566806.1	-	0	499																											GGTCTCCTGCAAGGCTTCTGG	0.552000													4	55					0	0	1	0	0
SPTA1	6708	broad.mit.edu	37	1	158583518	158583518	+	Missense_Mutation	SNP	G	G	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr1:158583518G>T	ENST00000368148.3	-	50	7162	c.6982C>A	c.(6982-6984)Cca>Aca	p.P2328T	SPTA1_ENST00000368147.3_Missense_Mutation_p.P2325T	NM_003126.2	NP_003117.2	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1 (elliptocytosis 2)	2328	EF-hand 2.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			NS(3)|breast(7)|cervix(1)|endometrium(22)|kidney(9)|large_intestine(29)|liver(2)|lung(183)|ovary(5)|prostate(18)|skin(11)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(6)	307	all_hematologic(112;0.0378)					TACCTCCCTGGATCCACAGCA	0.493000													14	34					3.27435e-08	3.4728e-08	1	1	0
RREB1	6239	broad.mit.edu	37	6	7231362	7231362	+	Silent	SNP	C	C	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr6:7231362C>T	ENST00000379938.2	+	10	3567	c.3030C>T	c.(3028-3030)ggC>ggT	p.G1010G	RREB1_ENST00000334984.6_Silent_p.G1010G|RREB1_ENST00000379933.3_Silent_p.G1010G|RREB1_ENST00000349384.6_Silent_p.G1010G	NM_001003699.3|NM_001003700.1	NP_001003699.1|NP_001003700.1	Q92766	RREB1_HUMAN	ras responsive element binding protein 1	1010	Pro-rich.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(5)|lung(18)|ovary(5)|pancreas(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CCCTGCAGGGCCCTGTTCAGC	0.667000													5	40					0	0	1	0	0
DLC1	10395	broad.mit.edu	37	8	13251080	13251080	+	Silent	SNP	T	T	G			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr8:13251080T>G	ENST00000276297.4	-	4	1705	c.1296A>C	c.(1294-1296)ggA>ggC	p.G432G	DLC1_ENST00000316609.5_Silent_p.G432G|DLC1_ENST00000511869.1_Silent_p.G432G	NM_182643.2	NP_872584.2	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1	432					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			NS(2)|breast(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(39)|lung(32)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	110						TGGGTTTGGTTCCAGAATTGG	0.413000													47	49					0	0	1	0	0
PIGZ	80235	broad.mit.edu	37	3	196678722	196678722	+	Missense_Mutation	SNP	C	C	T	rs146476701		TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr3:196678722C>T	ENST00000412723.1	-	2	327	c.181G>A	c.(181-183)Gag>Aag	p.E61K	PIGZ_ENST00000443835.1_Missense_Mutation_p.E61K	NM_025163.2	NP_079439.2	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class Z	61					GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			breast(1)|endometrium(1)|lung(7)|ovary(3)|prostate(1)|urinary_tract(1)	14	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		TGGAAGAACTCATCTGGGTGC	0.567000													3	47					0	0	1	0	0
TSSC2	0	broad.mit.edu	37	11	3427759	3427759	+	RNA	SNP	C	C	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr11:3427759C>T	ENST00000529482.1	+	0	876																											TGTCTGCACACGTCCTGCAGT	0.612000													4	41					0	0	1	0	0
HTR3B	9177	broad.mit.edu	37	11	113815463	113815463	+	Missense_Mutation	SNP	G	G	A			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr11:113815463G>A	ENST00000260191.2	+	8	1333	c.1076G>A	c.(1075-1077)cGt>cAt	p.R359H	HTR3B_ENST00000537778.1_Missense_Mutation_p.R348H	NM_006028.4	NP_006019.1	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B, ionotropic	359					synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(11)	20		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		AGGGCCCAACGTGCTGTGGTA	0.532000													29	44					0	0	1	0	0
PCDHGA3	0	broad.mit.edu	37	5	140725487	140725487	+	Silent	SNP	G	G	A			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr5:140725487G>A	ENST00000253812.6	+	1	1887	c.1887G>A	c.(1885-1887)gcG>gcA	p.A629A	PCDHGA2_ENST00000394576.2_Intron|PCDHGA1_ENST00000517417.1_Intron	NM_018916.3|NM_032011.1	NP_061739.2|NP_114400.1												p.A629A(1)		breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCGCACGGCGCGAGCCCTGC	0.701000													33	67					0	0	1	0	0
LL22NC03-80A10.6	0	broad.mit.edu	37	22	22661362	22661362	+	RNA	SNP	C	C	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr22:22661362C>T	ENST00000426066.1	+	0	360					NR_027293.1																						TGGGCAACAGCGAGGGAAATG	0.502000													3	40					0	0	1	0	0
CYP21A1P	0	broad.mit.edu	37	6	31975129	31975129	+	RNA	SNP	T	T	C	rs113153064	by1000genomes	TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr6:31975129T>C	ENST00000342991.6	+	0	1252					NR_040090.1		Q5ST44	Q5ST44_HUMAN									electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen										AAGAGGGCTCTGGACAGCTCC	0.607000													4	82					0	0	1	0	0
CYP4Z2P	0	broad.mit.edu	37	1	47325354	47325354	+	RNA	SNP	G	G	A	rs4660360	by1000genomes	TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr1:47325354G>A	ENST00000505841.1	-	0	1175					NR_002788.2																						CATCTGGAAAGGTAATGGGTT	0.438000													7	61					0	0	1	0	0
TUBBP5	0	broad.mit.edu	37	9	141070069	141070069	+	RNA	SNP	C	C	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr9:141070069C>T	ENST00000503395.1	+	0	1149																											GGTACGTGCCCCGCGCTGTGC	0.711000													3	46					0	0	1	0	0
RGS6	9628	broad.mit.edu	37	14	72961875	72961875	+	Silent	SNP	G	G	A			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr14:72961875G>A	ENST00000553530.1	+	13	1077	c.870G>A	c.(868-870)acG>acA	p.T290T	RGS6_ENST00000434263.2_Silent_p.T221T|RGS6_ENST00000555571.1_Silent_p.T290T|RGS6_ENST00000556437.1_Silent_p.T290T|RGS6_ENST00000402788.2_Silent_p.T290T|RGS6_ENST00000554782.1_Silent_p.T151T|RGS6_ENST00000343854.6_Intron|RGS6_ENST00000407322.4_Silent_p.T290T|RGS6_ENST00000406236.4_Silent_p.T290T|RGS6_ENST00000553525.1_Silent_p.T290T|RGS6_ENST00000404301.2_Silent_p.T290T|RGS6_ENST00000355512.6_Silent_p.T290T	NM_001204417.1|NM_001204418.1|NM_001204420.1|NM_001204421.1|NM_001204422.1|NM_004296.5	NP_001191346.1|NP_001191347.1|NP_001191349.1|NP_001191350.1|NP_001191351.1|NP_004287.3	P49758	RGS6_HUMAN	regulator of G-protein signaling 6	290	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			endometrium(2)|kidney(3)|large_intestine(6)|lung(14)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	33				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		TTGCCTACACGGAACAATATG	0.433000													6	112					0	0	1	0	0
BDH1	622	broad.mit.edu	37	3	197239158	197239158	+	Missense_Mutation	SNP	C	C	A			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr3:197239158C>A	ENST00000392379.1	-	8	1041	c.640G>T	c.(640-642)Ggg>Tgg	p.G214W	BDH1_ENST00000441275.1_Missense_Mutation_p.G127W|BDH1_ENST00000392378.2_Missense_Mutation_p.G214W|BDH1_ENST00000358186.2_Missense_Mutation_p.G214W	NM_203314.2	NP_976059.1	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	214					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			endometrium(2)|large_intestine(1)|lung(6)|ovary(1)|skin(1)	11	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	GCCTCTACCCCGAACTTGGTG	0.632000													20	36					2.4624e-09	2.69325e-09	1	1	0
LILRA1	11024	broad.mit.edu	37	19	55107397	55107397	+	Missense_Mutation	SNP	G	G	A	rs149029653	byFrequency	TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr19:55107397G>A	ENST00000251372.3	+	6	1137	c.955G>A	c.(955-957)Gca>Aca	p.A319T	LILRB1_ENST00000448689.1_Intron|LILRB1_ENST00000396321.2_Intron|LILRA1_ENST00000473156.1_3'UTR|LILRA1_ENST00000453777.1_Intron|LILRB1_ENST00000418536.2_Intron	NM_006863.1	NP_006854.1	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 1	319					cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(5)|liver(1)|lung(23)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	47				GBM - Glioblastoma multiforme(193;0.0348)		CATCCTGATCGCAGGTGAGGA	0.682000													4	72					0	0	1	0	0
FAM124B	79843	broad.mit.edu	37	2	225266211	225266211	+	Missense_Mutation	SNP	G	G	A			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr2:225266211G>A	ENST00000389874.3	-	1	500	c.275C>T	c.(274-276)tCg>tTg	p.S92L	FAM124B_ENST00000243806.2_Missense_Mutation_p.S92L|FAM124B_ENST00000409685.3_Missense_Mutation_p.S92L	NM_024785.2	NP_079061.2	Q9H5Z6	F124B_HUMAN	family with sequence similarity 124B	92							protein binding			endometrium(2)|large_intestine(2)|lung(7)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)	16		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		CTGCCATGGCGAATGCTGGAG	0.582000													13	36					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	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				21	40					0	0	1	0	0
C17orf59	54785	broad.mit.edu	37	17	8093098	8093098	+	Missense_Mutation	SNP	A	A	C			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr17:8093098A>C	ENST00000389017.4	-	1	466	c.361T>G	c.(361-363)Tcc>Gcc	p.S121A		NM_017622.2	NP_060092.2	Q96GS4	CQ059_HUMAN	chromosome 17 open reading frame 59	121										large_intestine(2)|lung(3)|urinary_tract(1)	6						CTCCCGGAGGAGGGCTTGCCC	0.731000													6	12					0	0	1	0	0
FAT3	120114	broad.mit.edu	37	11	92568204	92568204	+	Missense_Mutation	SNP	G	G	C			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr11:92568204G>C	ENST00000298047.6	+	14	10057	c.10040G>C	c.(10039-10041)aGt>aCt	p.S3347T	FAT3_ENST00000409404.2_Missense_Mutation_p.S3347T|FAT3_ENST00000525166.1_Missense_Mutation_p.S3197T			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	3347	Cadherin 31.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GACGTCTACAGTGCGGTTATC	0.517000										TCGA Ovarian(4;0.039)			7	10					0	0	1	0	0
COL22A1	169044	broad.mit.edu	37	8	139668161	139668161	+	Silent	SNP	C	C	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr8:139668161C>T	ENST00000303045.6	-	45	3758	c.3312G>A	c.(3310-3312)ggG>ggA	p.G1104G	COL22A1_ENST00000341807.4_5'UTR|COL22A1_ENST00000435777.1_Silent_p.G1084G	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1104	Gly-rich.|Pro-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(14)|large_intestine(29)|lung(107)|ovary(13)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(15)|urinary_tract(4)	211	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GATTTATGTCCCCTGGAGACA	0.388000										HNSCC(7;0.00092)			7	131					0	0	1	0	0
LINC00969	0	broad.mit.edu	37	3	195400918	195400919	+	RNA	INS	-	-	T	rs55992531	by1000genomes	TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr3:195400918_195400919insT	ENST00000445430.1	+	0	1454																											AGTCttttttctttttttttga	0.525													5	9	---	---	---	---					
ARID1B	57492	broad.mit.edu	37	6	157100396	157100397	+	In_Frame_Ins	INS	-	-	CGC			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr6:157100396_157100397insCGC	ENST00000346085.5	+	1	1334_1335	c.1333_1334insCGC	c.(1333-1335)gcc>CGCgcc	p.444_445insR	ARID1B_ENST00000367148.1_In_Frame_Ins_p.444_445insR|ARID1B_ENST00000350026.5_In_Frame_Ins_p.444_445insR|ARID1B_ENST00000275248.4_In_Frame_Ins_p.386_387insR	NM_020732.3	NP_065783.3	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	444	Ala-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity	p.P392_S393insP(1)		NS(2)|breast(5)|central_nervous_system(4)|endometrium(12)|kidney(4)|large_intestine(11)|lung(30)|ovary(3)|pancreas(1)|prostate(4)|skin(2)|urinary_tract(3)	81		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CAGCCCCAGCGCGCCGCCGCCG	0.787													4	4	---	---	---	---					
MUC6	4588	broad.mit.edu	37	11	1030583	1030583	+	Frame_Shift_Del	DEL	G	G	-			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr11:1030583delG	ENST00000421673.2	-	7	932	c.882delC	c.(880-882)ccfs	p.P294fs		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	294					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGCACAGGCCGGGGCTCCGCC	0.706													2	4	---	---	---	---					
PKD1L2	114780	broad.mit.edu	37	16	81183625	81183626	+	RNA	DEL	TT	TT	-	rs11296516		TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chr16:81183625_81183626delTT	ENST00000533478.1	-	0	2609				PKD1L2_ENST00000525539.1_RNA	NM_001278425.1	NP_001265354.1	Q7Z442	PK1L2_HUMAN	polycystic kidney disease 1-like 2						neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	44						TTGTTCACACtttttttttttt	0.465													5	3	---	---	---	---					
CXXC1P1	0	broad.mit.edu	37	X	47578328	47578329	+	RNA	INS	-	-	T			TCGA-KS-A4I5-01A-11D-A257-08	TCGA-KS-A4I5-11A-11D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af67f563-1ff5-4bde-98d3-2a8423cf3dc3	e2e7d21f-54cf-4016-9a52-93ece18ee0d6	g.chrX:47578328_47578329insT	ENST00000483225.1	+	0	195					NR_033924.1																						CAAAGCTGCCGTTTTTTTGTGT	0.495													3	5	---	---	---	---