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
MED8	112950	broad.mit.edu	37	1	43851858	43851858	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr1:43851858G>A	uc001cjg.3	-	6	581	c.533C>T	c.(532-534)ACT>ATT	p.T178I	MED8_uc001cje.1_Missense_Mutation_p.T178I|MED8_uc001cjf.3_Missense_Mutation_p.T89I	NM_201542	NP_963836	Q96G25	MED8_HUMAN	mediator complex subunit 8 isoform 1	178					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CAAGGCATTAGTGTCTGTAGG	0.542000												
LY9	4063	broad.mit.edu	37	1	160783561	160783561	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr1:160783561A>G	uc001fwu.2	+	3	640	c.590A>G	c.(589-591)CAT>CGT	p.H197R	LY9_uc010pjs.1_Missense_Mutation_p.H197R|LY9_uc001fwv.2_Missense_Mutation_p.H197R|LY9_uc001fww.2_Missense_Mutation_p.H197R|LY9_uc001fwx.2_Missense_Mutation_p.H197R|LY9_uc001fwy.1_Missense_Mutation_p.H99R|LY9_uc001fwz.2_5'Flank	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	197	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			AGGGAACCCCATGCTTCTGAG	0.542000												
PPP1R15B	84919	broad.mit.edu	37	1	204380537	204380537	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr1:204380537C>G	uc001hav.3	-	1	408	c.3G>C	c.(1-3)ATG>ATC	p.M1I		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	1					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			TCCCCGGCTCCATCTCCTTTT	0.642000												
EXO1	9156	broad.mit.edu	37	1	242016726	242016726	+	Silent	SNP	A	A	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr1:242016726A>G	uc001hzh.2	+	6	888	c.348A>G	c.(346-348)CGA>CGG	p.R116R	EXO1_uc001hzi.2_Silent_p.R116R|EXO1_uc001hzj.2_Silent_p.R116R|EXO1_uc009xgq.2_Silent_p.R116R	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	116					meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CGGAAGCTCGAGAGTGTTTCA	0.423000								Direct_reversal_of_damage|Editing_and_processing_nucleases				
MTPAP	55149	broad.mit.edu	37	10	30615481	30615481	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr10:30615481T>G	uc001iva.3	-	5	927	c.864A>C	c.(862-864)TTA>TTC	p.L288F	MTPAP_uc001ivb.3_Missense_Mutation_p.L418F	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	288					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1						GGCACTCTCCTAACACAGACA	0.443000												
CPN1	1369	broad.mit.edu	37	10	101829528	101829528	+	Silent	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr10:101829528G>A	uc001kql.2	-	3	779	c.519C>T	c.(517-519)AAC>AAT	p.N173N		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	173	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		CGTACTTCTCGTTATAGTAGA	0.478000												
CKAP5	9793	broad.mit.edu	37	11	46799806	46799806	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr11:46799806C>A	uc001ndi.1	-	22	2741	c.2631G>T	c.(2629-2631)AGG>AGT	p.R877S	CKAP5_uc009ylg.1_Missense_Mutation_p.R763S|CKAP5_uc001ndj.1_Missense_Mutation_p.R877S	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	877	HEAT 5.				cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						GGCCTTCTTTCCTAATCTTCC	0.358000												
MMP20	9313	broad.mit.edu	37	11	102496027	102496027	+	Silent	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr11:102496027G>A	uc001phc.2	-	1	37	c.24C>T	c.(22-24)GGC>GGT	p.G8G		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	8					proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		AGACAGCAAGGCCAGATGCAG	0.562000												
MMP8	4317	broad.mit.edu	37	11	102584178	102584178	+	Missense_Mutation	SNP	A	A	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr11:102584178A>T	uc001phe.2	-	10	1404	c.1305T>A	c.(1303-1305)CAT>CAA	p.H435Q	MMP8_uc010rut.1_3'UTR|MMP8_uc010ruu.1_Missense_Mutation_p.H412Q	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	435	Hemopexin-like 4.				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CACTGAAGACATGGAAGAAAT	0.353000												
DYNC2H1	79659	broad.mit.edu	37	11	103270478	103270478	+	Missense_Mutation	SNP	A	A	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr11:103270478A>T	uc001pho.2	+	84	12388	c.12244A>T	c.(12244-12246)AAT>TAT	p.N4082Y	DYNC2H1_uc001phn.1_Missense_Mutation_p.N4089Y|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	4082					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TGAACAATTTAATGCTATTCG	0.373000												
FLI1	2313	broad.mit.edu	37	11	128680436	128680436	+	Silent	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr11:128680436G>T	uc010sbu.1	+	9	1253	c.912G>T	c.(910-912)GGG>GGT	p.G304G	FLI1_uc010sbt.1_Silent_p.G111G|FLI1_uc010sbv.1_Silent_p.G271G|FLI1_uc009zci.2_Silent_p.G238G	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	304	ETS.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		CCTGGGAGGGGACCAACGGGG	0.622000			T	EWSR1	Ewing sarcoma							
LRRK2	120892	broad.mit.edu	37	12	40671789	40671789	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr12:40671789T>C	uc001rmg.3	+	17	2162	c.2041T>C	c.(2041-2043)TCC>CCC	p.S681P	LRRK2_uc001rmh.1_Missense_Mutation_p.S303P	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	681					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TCAAATGTCTTCCAATATCAT	0.343000												
DBX2	440097	broad.mit.edu	37	12	45444623	45444623	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr12:45444623C>T	uc001rok.1	-	1	260	c.88G>A	c.(88-90)GGC>AGC	p.G30S		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	developing brain homeobox 2	30						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)		TTGCCAAAGCCGGGCGCAGCG	0.711000												
FOXN4	121643	broad.mit.edu	37	12	109719324	109719324	+	Silent	SNP	C	C	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr12:109719324C>A	uc001toe.3	-	9	1287	c.1182G>T	c.(1180-1182)CCG>CCT	p.P394P	FOXN4_uc009zvg.2_Silent_p.P191P|FOXN4_uc001tof.3_Silent_p.P214P	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	394					axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|lung(1)	2						GGTGGGGGAGCGGGCTGGGGC	0.647000												
COL4A1	1282	broad.mit.edu	37	13	110861227	110861227	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr13:110861227C>T	uc001vqw.3	-	12	784	c.662G>A	c.(661-663)GGC>GAC	p.G221D	COL4A1_uc010agl.2_Missense_Mutation_p.G221D	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	221	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AAAACTTAAGCCCATTTGTCC	0.403000												
SLC12A1	6557	broad.mit.edu	37	15	48527094	48527094	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr15:48527094T>G	uc001zwn.3	+	9	1324	c.1108T>G	c.(1108-1110)TTT>GTT	p.F370V	SLC12A1_uc010uew.1_Missense_Mutation_p.F176V|SLC12A1_uc010bem.2_Missense_Mutation_p.F370V|SLC12A1_uc010uex.1_Missense_Mutation_p.F370V|SLC12A1_uc001zwq.3_Missense_Mutation_p.F141V|SLC12A1_uc001zwr.3_Missense_Mutation_p.F97V	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	370					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TGCAGAAAACTTTGGGCCACG	0.403000												
SCNN1B	6338	broad.mit.edu	37	16	23366787	23366787	+	Silent	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr16:23366787C>T	uc002dln.2	+	4	929	c.753C>T	c.(751-753)TTC>TTT	p.F251F		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	251	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	CCTGCCTATTCGGAGCTGAGC	0.493000												
SLC5A2	6524	broad.mit.edu	37	16	31500611	31500611	+	Silent	SNP	C	C	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr16:31500611C>A	uc002ecf.3	+	12	1636	c.1617C>A	c.(1615-1617)CTC>CTA	p.L539L	SLC5A2_uc010car.2_RNA|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	539	Helical; (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						GCTCTGGCCTCCTCACCCTCA	0.647000												
ALOX12	239	broad.mit.edu	37	17	6902654	6902654	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr17:6902654G>A	uc002gdx.3	+	6	729	c.676G>A	c.(676-678)GAG>AAG	p.E226K		NM_000697	NP_000688	P18054	LOX12_HUMAN	arachidonate 12-lipoxygenase	226	Lipoxygenase.				anti-apoptosis|cellular component movement|fatty acid oxidation|leukotriene biosynthetic process|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of cell proliferation|superoxide anion generation	cytosol|sarcolemma	arachidonate 12-lipoxygenase activity|hepoxilin-epoxide hydrolase activity|iron ion binding|lipoxygenase activity|protein binding			central_nervous_system(1)	1						GCAGGATGATGAGTTGTTCAG	0.552000												
TP53	7157	broad.mit.edu	37	17	7578271	7578271	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr17:7578271T>C	uc002gim.2	-	6	772	c.578A>G	c.(577-579)CAT>CGT	p.H193R	TP53_uc002gig.1_Missense_Mutation_p.H193R|TP53_uc002gih.2_Missense_Mutation_p.H193R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61R|TP53_uc010cng.1_Missense_Mutation_p.H61R|TP53_uc002gii.1_Missense_Mutation_p.H61R|TP53_uc010cnh.1_Missense_Mutation_p.H193R|TP53_uc010cni.1_Missense_Mutation_p.H193R|TP53_uc002gij.2_Missense_Mutation_p.H193R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100R|TP53_uc002gio.2_Missense_Mutation_p.H61R|TP53_uc010vug.1_Missense_Mutation_p.H154R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCGGATAAGATGCTGAGGAGG	0.562000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)		
NOS2	4843	broad.mit.edu	37	17	26105786	26105786	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr17:26105786T>C	uc002gzu.2	-	11	1475	c.1211A>G	c.(1210-1212)CAC>CGC	p.H404R	NOS2_uc010crh.1_Missense_Mutation_p.H404R|NOS2_uc010wab.1_Missense_Mutation_p.H404R	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	404					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GGCCAGCTTGTGCGTTTCCAG	0.562000												
TBXA2R	6915	broad.mit.edu	37	19	3600596	3600596	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr19:3600596G>A	uc002lyg.1	-	2	251	c.37C>T	c.(37-39)CGG>TGG	p.R13W	TBXA2R_uc002lye.1_Missense_Mutation_p.R13W	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	13	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	TTTGTGGGCCGGAAACAGGGC	0.667000												
SAFB	6294	broad.mit.edu	37	19	5654453	5654453	+	Missense_Mutation	SNP	G	G	A	rs147202286		TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr19:5654453G>A	uc002mcf.2	+	13	1794	c.1741G>A	c.(1741-1743)GGG>AGG	p.G581R	SAFB_uc002mcg.2_Missense_Mutation_p.G581R|SAFB_uc002mce.3_Missense_Mutation_p.G581R|SAFB_uc010xir.1_Missense_Mutation_p.G581R|SAFB_uc010xis.1_Missense_Mutation_p.G512R|SAFB_uc010xit.1_Missense_Mutation_p.G424R|SAFB_uc010xiu.1_Missense_Mutation_p.G380R	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	581	Interaction with POLR2A.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		AAAAACGTCCGGGTCCAAAGA	0.413000												
MUC16	94025	broad.mit.edu	37	19	9057759	9057759	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr19:9057759G>C	uc002mkp.2	-	3	29891	c.29687C>G	c.(29686-29688)GCA>GGA	p.A9896G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9898	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATAAAGGACTGCACTTGTTTC	0.473000												
FAM129C	199786	broad.mit.edu	37	19	17641671	17641671	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr19:17641671G>A	uc010xpr.1	+	3	394	c.256G>A	c.(256-258)GGA>AGA	p.G86R	FAM129C_uc010xpq.1_Missense_Mutation_p.G86R|FAM129C_uc010xps.1_Missense_Mutation_p.G55R|FAM129C_uc010xpt.1_Intron	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	86											0						GGAGCCGACCGGAAGCCAGTT	0.632000												
ZNF665	79788	broad.mit.edu	37	19	53669357	53669357	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr19:53669357C>T	uc010eqm.1	-	4	486	c.386G>A	c.(385-387)AGA>AAA	p.R129K		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	64					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		TGCAGCCCTTCTATCACGTTG	0.388000												
PXDN	7837	broad.mit.edu	37	2	1643143	1643143	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr2:1643143C>G	uc002qxa.2	-	20	4068	c.4004G>C	c.(4003-4005)AGA>ACA	p.R1335T		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1335					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		AAGAGACCGTCTGCCTCGGAA	0.498000												
SP100	6672	broad.mit.edu	37	2	231379989	231379989	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr2:231379989G>T	uc002vqt.2	+	25	2415	c.2274G>T	c.(2272-2274)GAG>GAT	p.E758D	SP100_uc002vqu.1_Intron|SP100_uc010fxp.1_Intron	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	758					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CTAAAGGGGAGAAAAAAAAGA	0.418000												
SCN11A	11280	broad.mit.edu	37	3	38941492	38941492	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr3:38941492G>A	uc011ays.1	-	13	2114	c.1915C>T	c.(1915-1917)CGA>TGA	p.R639*		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	639	II.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TTCCAGCCTCGGCGAAAGTAG	0.418000												
HHATL	57467	broad.mit.edu	37	3	42735277	42735277	+	Silent	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr3:42735277G>A	uc003clw.2	-	11	1227	c.1080C>T	c.(1078-1080)TCC>TCT	p.S360S	HHATL_uc003clx.2_Silent_p.S360S	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	360					negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		GGATCACAGCGGAATGCTCCC	0.542000												
IGSF11	152404	broad.mit.edu	37	3	118645024	118645024	+	Silent	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr3:118645024C>T	uc003ebw.2	-	4	751	c.504G>A	c.(502-504)GAG>GAA	p.E168E	IGSF11_uc011biv.1_Silent_p.E168E|IGSF11_uc003ebx.2_Silent_p.E168E|IGSF11_uc003eby.2_Silent_p.E167E|IGSF11_uc003ebz.2_Silent_p.E167E|IGSF11_uc010hqs.2_Silent_p.E167E	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	168	Ig-like C2-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GAATGCCTTCCTCTGAGCTAC	0.488000												
ARHGAP31	57514	broad.mit.edu	37	3	119112366	119112366	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr3:119112366C>T	uc003ecj.3	+	8	1466	c.934C>T	c.(934-936)CGT>TGT	p.R312C		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	312					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TAACCTGGGACGTTCTGGATC	0.393000												
TMCC1	23023	broad.mit.edu	37	3	129389972	129389972	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr3:129389972G>T	uc003emz.3	-	5	1213	c.712C>A	c.(712-714)CAG>AAG	p.Q238K	TMCC1_uc003emy.3_5'UTR|TMCC1_uc011blc.1_Missense_Mutation_p.Q59K|TMCC1_uc010htg.2_Missense_Mutation_p.Q124K	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	238	Potential.					integral to membrane				skin(1)	1						ATCTTCTGCTGCAGGTGAGCA	0.527000												
REST	5978	broad.mit.edu	37	4	57797479	57797479	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr4:57797479G>T	uc003hch.2	+	4	2802	c.2455G>T	c.(2455-2457)GAT>TAT	p.D819Y	REST_uc003hci.2_Missense_Mutation_p.D819Y|REST_uc010ihf.2_Missense_Mutation_p.D493Y	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	819					cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					TCTCCGAAAAGATAAAAAGGA	0.498000												
ADAMTS12	81792	broad.mit.edu	37	5	33561157	33561157	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr5:33561157C>A	uc003jia.1	-	20	4263	c.4100G>T	c.(4099-4101)GGC>GTC	p.G1367V	ADAMTS12_uc010iuq.1_Missense_Mutation_p.G1282V	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1367					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CACTTTCCAGCCAGCACAGGG	0.527000										HNSCC(64;0.19)		
GPR98	84059	broad.mit.edu	37	5	89938526	89938526	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr5:89938526C>T	uc003kju.2	+	12	2410	c.2314C>T	c.(2314-2316)CCT>TCT	p.P772S	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	772	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AAATGATGACCCTGGGGGAGT	0.388000												
PCDHGA1	56114	broad.mit.edu	37	5	140712464	140712464	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr5:140712464C>T	uc003lji.1	+	1	2213	c.2213C>T	c.(2212-2214)TCG>TTG	p.S738L	PCDHGA1_uc011dan.1_Missense_Mutation_p.S738L	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	738	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGCCCGGTTCGCACTTTGTG	0.642000												
GPRIN1	114787	broad.mit.edu	37	5	176026581	176026581	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr5:176026581G>T	uc003meo.1	-	2	430	c.255C>A	c.(253-255)GAC>GAA	p.D85E		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	85						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCTGGGGCCGTCAGAGCAGG	0.657000												
CDK14	5218	broad.mit.edu	37	7	90747439	90747439	+	Missense_Mutation	SNP	C	C	T	rs145303395		TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr7:90747439C>T	uc003uky.2	+	14	1576	c.1354C>T	c.(1354-1356)CGG>TGG	p.R452W	CDK14_uc003ukz.1_Missense_Mutation_p.R434W|CDK14_uc010les.1_Missense_Mutation_p.R406W|CDK14_uc011khl.1_Missense_Mutation_p.R323W	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	452					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						AGAAAGCATGCGGGCCTTTGG	0.393000												
CPSF4	10898	broad.mit.edu	37	7	99051673	99051674	+	Missense_Mutation	DNP	CC	CC	AA			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr7:99051673_99051674CC>AA	uc003uqj.2	+	7	798_799	c.655_656CC>AA	c.(655-657)CCG>AAG	p.P219K	PTCD1_uc011kiw.1_Intron|CPSF4_uc003uqi.2_Missense_Mutation_p.P194K|CPSF4_uc003uqk.2_Missense_Mutation_p.P193K|CPSF4_uc011kix.1_Missense_Mutation_p.P141K	NM_006693	NP_006684	O95639	CPSF4_HUMAN	cleavage and polyadenylation specific factor 4,	219					modification by virus of host mRNA processing|mRNA processing|viral infectious cycle	mRNA cleavage and polyadenylation specificity factor complex	RNA binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GCAGAGAACCCCGCAGGTCATC	0.554000												
FAM110B	90362	broad.mit.edu	37	8	59059521	59059521	+	Silent	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr8:59059521G>T	uc003xtj.1	+	5	1612	c.732G>T	c.(730-732)GTG>GTT	p.V244V		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	244						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				CCGACCCTGTGGAACCAGCTT	0.612000												
TG	7038	broad.mit.edu	37	8	133900554	133900554	+	Silent	SNP	G	G	A	rs138731686		TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr8:133900554G>A	uc003ytw.2	+	10	2543	c.2502G>A	c.(2500-2502)CCG>CCA	p.P834P		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	834	Thyroglobulin type-1 7.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ATGTCTTCCCGGTGCTGTCAC	0.522000												
TNC	3371	broad.mit.edu	37	9	117808831	117808831	+	Silent	SNP	A	A	C			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr9:117808831A>C	uc004bjj.3	-	17	5345	c.4983T>G	c.(4981-4983)TCT>TCG	p.S1661S	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1661	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCAGTGGCTCAGACTGCTTTT	0.468000												
P2RY8	286530	broad.mit.edu	37	X	1585140	1585140	+	Silent	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chrX:1585140G>A	uc004cpz.2	-	2	560	c.312C>T	c.(310-312)TAC>TAT	p.Y104Y		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	104	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACATGTTTGCGTAAAAGGCCA	0.587000			T	CRLF2	B-ALL|Downs associated ALL							
STARD8	9754	broad.mit.edu	37	X	67943490	67943490	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chrX:67943490G>A	uc004dxa.2	+	12	2954	c.2582G>A	c.(2581-2583)CGG>CAG	p.R861Q	STARD8_uc004dxb.2_Missense_Mutation_p.R941Q|STARD8_uc004dxc.3_Missense_Mutation_p.R861Q	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	861	START.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						CACCCCCTGCGGCTATGGAAG	0.667000												
RGAG1	57529	broad.mit.edu	37	X	109695526	109695526	+	Silent	SNP	T	T	C			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chrX:109695526T>C	uc004eor.1	+	3	1927	c.1681T>C	c.(1681-1683)TTG>CTG	p.L561L	RGAG1_uc011msr.1_Silent_p.L561L	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	561										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GGCCTCAGGATTGACATCTGC	0.498000												
THOC2	57187	broad.mit.edu	37	X	122744807	122744807	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chrX:122744807A>G	uc004etu.2	-	38	4794	c.4762T>C	c.(4762-4764)TCC>CCC	p.S1588P	THOC2_uc004etv.3_RNA	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1588	Lys-rich.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TTGTCCGAGGACTTATGAGTA	0.403000												
GABRQ	55879	broad.mit.edu	37	X	151808925	151808925	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chrX:151808925G>T	uc004ffp.1	+	2	256	c.236G>T	c.(235-237)GGA>GTA	p.G79V		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	79	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCGAATTTTGGAGGTAAGGCA	0.483000												
VIPAR	63894	broad.mit.edu	37	14	77910667	77910668	+	Frame_Shift_Del	DEL	TC	TC	-			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr14:77910667_77910668delTC	uc001xtt.1	-	9	859_860	c.521_522delGA	c.(520-522)AGAfs	p.R174fs	VIPAR_uc001xtu.1_Frame_Shift_Del_p.R174fs|VIPAR_uc010tvj.1_Frame_Shift_Del_p.R125fs|VIPAR_uc001xtv.1_Frame_Shift_Del_p.R174fs	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	174					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						AGGAGCGGAATCTCTCTAGTGA	0.391												
MLL4	9757	broad.mit.edu	37	19	36229073	36229075	+	In_Frame_Del	DEL	AGA	AGA	-			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr19:36229073_36229075delAGA	uc010eei.2	+	37	7853_7855	c.7853_7855delAGA	c.(7852-7857)GAGAAG>GAG	p.K2619del		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2619	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACAAGCGGGAGAAGTTCTACGA	0.606												
ARID1A	8289	broad.mit.edu	37	1	27101266	27101266	+	Frame_Shift_Del	DEL	T	T	-			TCGA-BR-6456-01A-11D-1800-08	TCGA-BR-6456-10A-01D-1800-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c612570a-881d-421f-98b9-0e4563133744	0adf6445-5470-4b30-923f-5028bdd471b3	g.chr1:27101265_27101265CT>C	uc001bmv.1	+	17	4920	c.4547_4547CT>C	c.(4546-4548)tctfs	p.S1516fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.S1515fs|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Frame_Shift_Del_p.S1133fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.S362fs|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	Homo sapiens AT rich interactive domain 1A (SWI-like) (ARID1A), transcript variant 1, mRNA.	1516					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	SWI/SNF complex|nBAF complex|npBAF complex	DNA binding|protein binding		ARID1A/MAST2_ENST00000361297(2)	NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(13)|central_nervous_system(6)|cervix(2)|endometrium(56)|haematopoietic_and_lymphoid_tissue(8)|kidney(10)|large_intestine(41)|liver(31)|lung(34)|ovary(130)|pancreas(18)|prostate(8)|skin(9)|stomach(14)|upper_aerodigestive_tract(4)|urinary_tract(24)	411		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		AGCACGGGCTCTGCCCCCCAG	0.592			"""Mis, N, F, S, D"""		"""clear cell ovarian carcinoma, RCC"""