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_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
FHL3	2275	broad.mit.edu	37	1	38465013	38465013	+	Silent	SNP	G	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr1:38465013G>A	uc001ccj.2	-	2	159	c.72C>T	c.(70-72)AGC>AGT	p.S24S	FHL3_uc001cck.2_Silent_p.S24S|FHL3_uc001ccl.2_Silent_p.S24S|FHL3_uc001ccm.2_Intron|FHL3_uc009vvl.1_Silent_p.S24S	NM_004468	NP_004459	Q13643	FHL3_HUMAN	four and a half LIM domains 3	24	C4-type (Potential).				muscle organ development		zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AGTAGGGGCCGCTGTCTGTCT	0.547													7	49	---	---	---	---	0	0	0.029380	0	0
AKR1A1	10327	broad.mit.edu	37	1	46032687	46032687	+	Silent	SNP	C	G	G			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr1:46032687C>G	uc001cod.2	+	5	815	c.351C>G	c.(349-351)GCC>GCG	p.A117A	AKR1A1_uc009vxw.2_Silent_p.A117A|AKR1A1_uc001coe.2_Silent_p.A117A|AKR1A1_uc001cof.2_5'Flank|AKR1A1_uc001cog.2_5'Flank	NM_006066	NP_006057	P14550	AK1A1_HUMAN	aldo-keto reductase family 1, member A1	117					glucose metabolic process		alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					GGCCTTATGCCTTTGAGTGAG	0.557													3	50	---	---	---	---	0	0	0.014758	0	0
FAM63B	54629	broad.mit.edu	37	15	59113964	59113964	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr15:59113964G>A	uc002afj.2	+	5	1373	c.1171G>A	c.(1171-1173)GTG>ATG	p.V391M	FAM63B_uc002afi.2_Missense_Mutation_p.V391M|FAM63B_uc002afk.2_RNA|FAM63B_uc002afl.2_RNA	NM_001040450	NP_001035540	Q8NBR6	FA63B_HUMAN	hypothetical protein LOC54629 isoform a	391										central_nervous_system(1)	1						CAACCAACTAGTGGAGAAGAT	0.388													7	46	---	---	---	---	0	0	0.047766	0	0
SGK269	79834	broad.mit.edu	37	15	77474126	77474126	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr15:77474126T>C	uc002bcm.2	-	3	451	c.143A>G	c.(142-144)AAT>AGT	p.N48S	SGK269_uc002bcn.2_Missense_Mutation_p.N48S	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	48					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		GTTACTGTGATTGGCATTAGT	0.483													16	124	---	---	---	---	0	0	0.038395	0	0
FLJ36000	284124	broad.mit.edu	37	17	21904193	21904193	+	RNA	SNP	C	G	G	rs9904221	by1000genomes	TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr17:21904193C>G	uc002gza.2	+	1		c.132C>G				NR_027084				Homo sapiens cDNA FLJ36000 fis, clone TESTI2015180.												0						cagcctcaggcctgccaggac	0													4	60	---	---	---	---	0	0	0.014758	0	0
ZNF345	25850	broad.mit.edu	37	19	37368055	37368055	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr19:37368055A>T	uc002oex.2	+	3	701	c.323A>T	c.(322-324)CAT>CTT	p.H108L	ZNF345_uc002oey.3_Missense_Mutation_p.H108L|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	108	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTTGCTTACCATCAAAGAATT	0.423													10	36	---	---	---	---	0	0	0.058154	0	0
TRPM4	54795	broad.mit.edu	37	19	49713617	49713617	+	Nonsense_Mutation	SNP	C	T	T			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr19:49713617C>T	uc002pmw.2	+	21	3355	c.3283C>T	c.(3283-3285)CGA>TGA	p.R1095*	TRPM4_uc010emu.2_Nonsense_Mutation_p.R950*|TRPM4_uc010yak.1_Nonsense_Mutation_p.R559*|TRPM4_uc002pmx.2_Nonsense_Mutation_p.R921*|TRPM4_uc010emv.2_Nonsense_Mutation_p.R980*|TRPM4_uc010yal.1_Nonsense_Mutation_p.R741*|TRPM4_uc002pmy.2_Nonsense_Mutation_p.R437*	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	1095	Cytoplasmic (Potential).|Calmodulin-binding.				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		ATTGTGCAGGCGACCCCGGAG	0.622													7	48	---	---	---	---	0	0	0.029380	0	0
TNRC6B	23112	broad.mit.edu	37	22	40719206	40719206	+	Silent	SNP	A	T	T			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr22:40719206A>T	uc011aor.1	+	23	5674	c.5463A>T	c.(5461-5463)CTA>CTT	p.L1821L	TNRC6B_uc003aym.2_Silent_p.L1017L|TNRC6B_uc003ayn.3_Silent_p.L1711L	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1821					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CTCCTTTACTACCTGGTGACC	0.517													4	41	---	---	---	---	0	0	0.014758	0	0
LRRN1	57633	broad.mit.edu	37	3	3887996	3887996	+	Silent	SNP	G	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr3:3887996G>A	uc003bpt.3	+	2	2432	c.1671G>A	c.(1669-1671)TCG>TCA	p.S557S	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	557	Fibronectin type-III.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		TAAAATGGTCGTCTGCCACCA	0.443													32	163	---	---	---	---	0	0	0.064281	0	0
ZNF621	285268	broad.mit.edu	37	3	40573621	40573621	+	Missense_Mutation	SNP	C	G	G			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr3:40573621C>G	uc003ckm.2	+	5	576	c.360C>G	c.(358-360)AAC>AAG	p.N120K	ZNF621_uc003ckn.2_Missense_Mutation_p.N120K|ZNF621_uc003cko.2_Missense_Mutation_p.N85K|ZNF621_uc011aze.1_Missense_Mutation_p.N112K	NM_001098414	NP_001091884	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	120					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		TTCTCAGGAACGTTTCTCAGC	0.413													9	74	---	---	---	---	0	0	0.058154	0	0
PPAT	5471	broad.mit.edu	37	4	57301543	57301543	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr4:57301543G>A	uc003hbr.2	-	1	303	c.101C>T	c.(100-102)ACT>ATT	p.T34I	PAICS_uc003hbs.1_5'Flank|PAICS_uc011cac.1_5'Flank|PAICS_uc003hbt.1_5'Flank|PAICS_uc003hbu.1_5'Flank|PAICS_uc010ihd.1_5'Flank	NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	34	Glutamine amidotransferase type-2.				glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	GAGTCCCAGAGTGATCACATG	0.652													18	83	---	---	---	---	0	0	0.069288	0	0
ANP32C	23520	broad.mit.edu	37	4	165118482	165118482	+	Missense_Mutation	SNP	C	G	G			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr4:165118482C>G	uc011cjk.1	-	1	382	c.382G>C	c.(382-384)GGA>CGA	p.G128R	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	128	LRR 4.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		ACGTTTTCTCCGTAGTCGTTC	0.458													30	103	---	---	---	---	0	0	0.041601	0	0
LOC647859	647859	broad.mit.edu	37	5	70378643	70378643	+	Missense_Mutation	SNP	C	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr5:70378643C>A	uc011cru.1	-	2	201	c.133G>T	c.(133-135)GTG>TTG	p.V45L	NAIP_uc003kat.1_Intron	NM_002538	NP_002529			occludin												0						GGACTCGCCACCAGTTGTGTA	0.498													7	24	---	---	---	---	0.00307968	0.00439954	0.038147	1	0
PEX7	5191	broad.mit.edu	37	6	137147485	137147485	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr6:137147485G>A	uc003qhd.2	+	3	319	c.217G>A	c.(217-219)GTG>ATG	p.V73M	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	73	WD 1.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		TTTGTTTGATGTGACTTGGAG	0.438													17	149	---	---	---	---	0	0	0.033300	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr7:140453136A>T	uc003vwc.3	-	15	1860	c.1799T>A	c.(1798-1800)GTG>GAG	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	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(16892)|p.V600?(325)|p.V600K(176)|p.V600R(36)|p.V600M(25)|p.V600A(23)|p.V600D(21)|p.V600G(11)|p.V600_K601>E(8)|p.T599_V600insTT(3)|p.T599_R603>I(2)|p.T599_V600>IAL(2)|p.V600L(2)|p.T599_V600insT(2)|p.V600_W604del(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insV(1)|p.T599_V600insDFGLAT(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368	V600E(UACC257_SKIN)|V600D(K029AX_SKIN)|V600E(HS695T_SKIN)|V600E(COLO679_SKIN)|V600E(BT474_BREAST)|V600E(IGR39_SKIN)|V600E(A101D_SKIN)|V600E(COLO783_SKIN)|V600E(IGR37_SKIN)|V600E(A375_SKIN)|V600E(WM793_SKIN)|V600E(COLO818_SKIN)|V600E(HS294T_SKIN)|V600E(SKMEL28_SKIN)|V600E(DU4475_BREAST)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(IGR1_SKIN)|V600E(SKHEP1_LIVER)|V600E(WM983B_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(RVH421_SKIN)|V600D(WM2664_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(SKMEL24_SKIN)|V600D(WM115_SKIN)|V600E(MALME3M_SKIN)|V600E(A673_BONE)|V600E(C32_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO800_SKIN)|V600E(COLO741_SKIN)|V600E(HS939T_SKIN)|V600E(COLO205_LARGE_INTESTINE)|V600E(K029AX_SKIN)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(SH4_SKIN)|V600E(WM88_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO849_SKIN)|V600E(MELHO_SKIN)|V600E(BHT101_THYROID)|V600E(G361_SKIN)|V600E(UACC62_SKIN)|V600E(BCPAP_THYROID)|V600E(8505C_THYROID)|V600E(SW1417_LARGE_INTESTINE)|V600E(COLO829_SKIN)|V600E(RKO_LARGE_INTESTINE)|V600E(A2058_SKIN)|V600E(RPMI7951_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(SKMEL5_SKIN)|V600E(ES2_OVARY)|V600E(LOXIMVI_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				33	35	---	---	---	---	0	0	0.054565	0	0
MLL3	58508	broad.mit.edu	37	7	151859891	151859891	+	Nonsense_Mutation	SNP	G	A	A			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr7:151859891G>A	uc003wla.2	-	43	10990	c.10771C>T	c.(10771-10773)CAG>TAG	p.Q3591*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q2652*|MLL3_uc003wky.2_Nonsense_Mutation_p.Q1100*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3591					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GAATACAACTGAATGAGCGAT	0.358			N		medulloblastoma								5	52	---	---	---	---	0	0	0.021553	0	0
GPR124	25960	broad.mit.edu	37	8	37693223	37693223	+	Missense_Mutation	SNP	G	A	A	rs142661492	by1000genomes	TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr8:37693223G>A	uc003xkj.2	+	13	2348	c.1985G>A	c.(1984-1986)CGC>CAC	p.R662H	GPR124_uc010lvy.2_Intron	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	662	Extracellular (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AACACCTCCCGCCCTGGAGCT	0.682													9	82	---	---	---	---	0	0	0.047766	0	0
HOOK3	84376	broad.mit.edu	37	8	42819533	42819533	+	Missense_Mutation	SNP	C	G	G			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr8:42819533C>G	uc003xpr.2	+	9	937	c.695C>G	c.(694-696)TCT>TGT	p.S232C	HOOK3_uc010lxq.1_Missense_Mutation_p.S232C	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	232	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			CAATCTGATTCTATAGAAGAC	0.413			T	RET	papillary thyroid								34	34	---	---	---	---	0	0	0.069456	0	0
CSMD3	114788	broad.mit.edu	37	8	113418891	113418891	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr8:113418891C>T	uc003ynu.2	-	35	5830	c.5671G>A	c.(5671-5673)GGC>AGC	p.G1891S	CSMD3_uc003yns.2_Missense_Mutation_p.G1093S|CSMD3_uc003ynt.2_Missense_Mutation_p.G1851S|CSMD3_uc011lhx.1_Missense_Mutation_p.G1787S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1891	Sushi 10.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AATTCATTGCCAATTCTTCTT	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			9	79	---	---	---	---	0	0	0.058154	0	0
Unknown	0	broad.mit.edu	37	1	121137791	121137793	+	IGR	DEL	CCA	-	-	rs28552466	by1000genomes	TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr1:121137791_121137793delCCA								FCGR1B (201847 upstream) : LOC647121 (123117 downstream)																							ATTTCGCCCTCCACCGCCGCCGC	0.631													6	11	---	---	---	---					
Unknown	0	broad.mit.edu	37	14	65747997	65747997	+	IGR	DEL	C	-	-			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr14:65747997delC								MAX (178770 upstream) : LOC645431 (129316 downstream)																							GATTTTCTTTCtttctttttt	0.244													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	32686328	32686329	+	5'Flank	INS	-	G	G			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr15:32686328_32686329insG	uc001zga.1	+											DQ593033																		AAATGGGTGCAGGGGGAGTCAG	0.594													4	9	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	9250813	9250814	+	IGR	DEL	TT	-	-	rs115093816	by1000genomes	TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr16:9250813_9250814delTT								C16orf72 (37268 upstream) : GRIN2A (596453 downstream)																							cggagccctctttttttttttt	0.163													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	42025266	42025267	+	IGR	INS	-	A	A	rs112096102		TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr17:42025266_42025267insA								PPY (5433 upstream) : PYY (4842 downstream)																							gactccgtgtcaaaaaaaaaaa	0.257													2	4	---	---	---	---					
PPM1D	8493	broad.mit.edu	37	17	58740817	58740818	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr17:58740817_58740818delCT	uc002iyt.1	+	6	1944_1945	c.1722_1723delCT	c.(1720-1725)AACTCTfs	p.N574fs	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	574_575					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			AGCGAAAGAACTCTGTTAAACT	0.465											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	27	81	---	---	---	---					
IL11	3589	broad.mit.edu	37	19	55877466	55877466	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr19:55877466delC	uc002qks.1	-	5	645	c.509delG	c.(508-510)GGCfs	p.G170fs	FAM71E2_uc002qkr.2_5'Flank|FAM71E2_uc002qkq.2_5'Flank|IL11_uc010yfx.1_Frame_Shift_Del_p.G91fs	NM_000641	NP_000632	P20809	IL11_HUMAN	interleukin 11 precursor	170					B cell differentiation|fat cell differentiation|megakaryocyte differentiation|negative regulation of hormone secretion|platelet activation|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity|growth factor activity|interleukin-11 receptor binding				0	Breast(117;0.191)	Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)	Oprelvekin(DB00038)	GGCCCTGATGCCCCCCCAGGC	0.577													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	9865569	9865570	+	IGR	INS	-	A	A	rs77497487	by1000genomes	TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr21:9865569_9865570insA								None (None upstream) : None (None downstream)																							CTGCTGAGTTTAAATCTTCCTT	0.490													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	28700746	28700747	+	IGR	INS	-	AA	AA	rs140985883		TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr6:28700746_28700747insAA								SCAND3 (145634 upstream) : TRIM27 (170033 downstream)																							ACATCAGTTTCaaaaaaaaaaa	0.198													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	148888416	148888419	+	IGR	DEL	CTCA	-	-	rs147356472		TCGA-DJ-A2PW-01A-11D-A19J-08	TCGA-DJ-A2PW-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	d6409f4a-e1fb-4831-8fe7-0a67450f615e	d33d4bc0-93b1-46ba-af93-21ad6af330f7	g.chr7:148888416_148888419delCTCA								ZNF398 (8300 upstream) : ZNF282 (4158 downstream)																							gagatggagtctcactctgtcgcc	0.172													3	5	---	---	---	---					
