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
NBPF15	284565	broad.mit.edu	37	1	148594610	148594610	+	Silent	SNP	G	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr1:148594610G>C	uc001esc.2	+	19	2472	c.1983G>C	c.(1981-1983)GTG>GTC	p.V661V		NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565	661	NBPF 6.					cytoplasm					0	all_hematologic(923;0.032)					TCCACCTGGTGTTCCAGATGG	0.448000													3	129	---	---	---	---	0	0	0.000248	0	0
ANGPTL1	9068	broad.mit.edu	37	1	178834453	178834453	+	Silent	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr1:178834453T>C	uc001gma.2	-	3	935	c.459A>G	c.(457-459)CAA>CAG	p.Q153Q	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Silent_p.Q153Q|ANGPTL1_uc010pnc.1_Silent_p.Q75Q	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	153	Potential.					extracellular space	receptor binding				0						TGTTTTCCAGTTGGGAAAGTT	0.388000													11	26	---	---	---	---	0	0	0.000978	0	0
KCTD3	51133	broad.mit.edu	37	1	215792548	215792548	+	Silent	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr1:215792548T>C	uc001hks.2	+	17	2095	c.1801T>C	c.(1801-1803)TTG>CTG	p.L601L	KCTD3_uc001hkt.2_Silent_p.L599L|KCTD3_uc010pub.1_Silent_p.L499L|KCTD3_uc009xdn.2_Silent_p.L325L	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	601						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TCAATGTGATTTGAGCACATC	0.393000													18	88	---	---	---	---	0	0	0.008871	0	0
HNRNPU	3192	broad.mit.edu	37	1	245026034	245026034	+	Splice_Site	SNP	T	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr1:245026034T>A	uc001iaz.1	-	2	910	c.692_splice	c.e2-1	p.G231_splice	HNRNPU_uc001iax.1_5'Flank|HNRNPU_uc001iay.1_5'Flank|HNRNPU_uc001iba.1_Splice_Site_p.G212_splice|HNRNPU_uc001ibb.1_Splice_Site	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U						CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			TGCCGTCCCCTAAAACACACA	0.438000													8	99	---	---	---	---	0	0	0.001855	0	0
IFIT1B	439996	broad.mit.edu	37	10	91144286	91144286	+	Silent	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr10:91144286T>C	uc001kgh.2	+	2	1296	c.1216T>C	c.(1216-1218)TTG>CTG	p.L406L	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	406	TPR 7.						binding				0						TTTAAAAGGTTTGAAAATAGA	0.363000													36	66	---	---	---	---	0	0	0.004289	0	0
OR4C6	219432	broad.mit.edu	37	11	55433335	55433335	+	Silent	SNP	G	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr11:55433335G>A	uc001nht.3	+	3	958	c.693G>A	c.(691-693)CGG>CGA	p.R231R	OR4C6_uc010rik.1_Silent_p.R231R	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CTAAAGGGCGGCACAAAGCCC	0.507000													4	132	---	---	---	---	0	0	0.000602	0	0
SLCO1A2	6579	broad.mit.edu	37	12	21467494	21467494	+	Missense_Mutation	SNP	G	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr12:21467494G>C	uc001rer.2	-	3	575	c.324C>G	c.(322-324)TTC>TTG	p.F108L	SLCO1A2_uc001res.2_Missense_Mutation_p.F108L|SLCO1A2_uc010siq.1_Intron|SLCO1A2_uc010sio.1_Intron|SLCO1A2_uc010sip.1_Intron|SLCO1A2_uc001ret.2_Missense_Mutation_p.F106L|SLCO1A2_uc001reu.2_Missense_Mutation_p.F88L	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	108	Helical; Name=3; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GGTTCATGAGGAAATGAGGTA	0.398000													3	85	---	---	---	---	0	0	0.004672	0	0
C12orf48	55010	broad.mit.edu	37	12	102559570	102559570	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr12:102559570G>A	uc001tjf.2	+	6	842	c.730G>A	c.(730-732)GAT>AAT	p.D244N	C12orf48_uc001tjg.2_Missense_Mutation_p.D163N|C12orf48_uc010swa.1_Missense_Mutation_p.D321N|C12orf48_uc001tjh.2_Missense_Mutation_p.D163N|C12orf48_uc010swb.1_Missense_Mutation_p.D130N|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_5'UTR|C12orf48_uc001tjk.2_Missense_Mutation_p.D244N|C12orf48_uc009zud.2_Missense_Mutation_p.D244N	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	244					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						ACCACCATCAGATCCTTTAAG	0.363000													7	126	---	---	---	---	0	0	0.001984	0	0
SMG1	23049	broad.mit.edu	37	16	18860687	18860687	+	Silent	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr16:18860687T>C	uc002dfm.2	-	36	5838	c.5475A>G	c.(5473-5475)CAA>CAG	p.Q1825Q	SMG1_uc010bwb.2_Silent_p.Q1685Q|SMG1_uc010bwa.2_Silent_p.Q556Q|SMG1_uc002dfo.3_Silent_p.Q123Q	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1825	HEAT.|FAT.|Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						GTGAGAAAAGTTGCGGAATAA	0.388000													7	70	---	---	---	---	0	0	0.003080	0	0
PKD1L2	114780	broad.mit.edu	37	16	81157274	81157274	+	Silent	SNP	G	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr16:81157274G>A	uc002fgh.1	-	39	6466	c.6466C>T	c.(6466-6468)CTA>TTA	p.L2156L	PKD1L2_uc002fgf.1_5'UTR|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2156	Helical; (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CTGGTCTCTAGCGTCAGCGTG	0.597000													4	94	---	---	---	---	0	0	0.000248	0	0
WDR45L	56270	broad.mit.edu	37	17	80579584	80579584	+	Silent	SNP	G	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr17:80579584G>A	uc002kfq.2	-	6	714	c.519C>T	c.(517-519)AGC>AGT	p.S173S	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	173					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			GCTTCTCCGTGCTGGCCAGGT	0.582000													7	35	---	---	---	---	0	0	0.006214	0	0
GALNT1	2589	broad.mit.edu	37	18	33271056	33271056	+	Silent	SNP	G	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr18:33271056G>A	uc010dmu.2	+	8	1112	c.1059G>A	c.(1057-1059)ACG>ACA	p.T353T	GALNT1_uc002kyz.3_Silent_p.T293T|GALNT1_uc002kzb.2_Silent_p.T353T	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	353	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						CACCTTACACGTTTCCAGGAG	0.403000													9	158	---	---	---	---	0	0	0.004482	0	0
MUC16	94025	broad.mit.edu	37	19	9074483	9074483	+	Silent	SNP	A	G	G			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr19:9074483A>G	uc002mkp.2	-	3	13167	c.12963T>C	c.(12961-12963)GCT>GCC	p.A4321A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4323	Thr-rich.|Extracellular (Potential).|Ser-rich.				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						TTGTCTCTGTAGCAGAGCTGG	0.502000													14	20	---	---	---	---	0	0	0.002450	0	0
ANKRD20B	729171	broad.mit.edu	37	2	95522772	95522772	+	RNA	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr2:95522772T>C	uc010fhp.2	-	1		c.49A>G				NR_003366				Homo sapiens ankyrin repeat domain 20B (ANKRD20B), non-coding RNA.												0						GCGCTCCACCTCCGCGGCGTC	0.682000													4	42	---	---	---	---	0	0	0.000248	0	0
ANKRD20B	729171	broad.mit.edu	37	2	95522786	95522786	+	RNA	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr2:95522786T>C	uc010fhp.2	-	1		c.35A>G				NR_003366				Homo sapiens ankyrin repeat domain 20B (ANKRD20B), non-coding RNA.												0						CGGCGTCGCCTTTGACAGCTG	0.687000													3	38	---	---	---	---	0	0	0.004672	0	0
SENP7	57337	broad.mit.edu	37	3	101090962	101090962	+	Missense_Mutation	SNP	T	G	G			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr3:101090962T>G	uc003dut.2	-	7	797	c.686A>C	c.(685-687)CAA>CCA	p.Q229P	SENP7_uc003duu.2_Missense_Mutation_p.Q164P|SENP7_uc003duv.2_Missense_Mutation_p.Q196P|SENP7_uc003duw.2_Missense_Mutation_p.Q163P|SENP7_uc003dux.2_Missense_Mutation_p.Q65P	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	229					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						CTTACTTCGTTGTGAGCCCCT	0.348000													3	88	---	---	---	---	0	0	0.004672	0	0
KIAA0141	9812	broad.mit.edu	37	5	141307808	141307808	+	Silent	SNP	C	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr5:141307808C>A	uc003lls.2	+	4	479	c.357C>A	c.(355-357)TCC>TCA	p.S119S	KIAA0141_uc003llt.2_Silent_p.S119S	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	119					apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACACTGCTCCTGGCACAGTC	0.627000													6	58	---	---	---	---	3.59834e-05	5.06432e-05	0.001168	1	0
STC2	8614	broad.mit.edu	37	5	172755126	172755126	+	Missense_Mutation	SNP	C	G	G			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr5:172755126C>G	uc003mco.1	-	1	1381	c.71G>C	c.(70-72)GGG>GCG	p.G24A	STC2_uc003mcn.1_5'Flank	NM_003714	NP_003705	O76061	STC2_HUMAN	stanniocalcin 2 precursor	24					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GGCGTCGGTCCCCCGCGCCGG	0.637000													22	101	---	---	---	---	0	0	0.002299	0	0
MUC17	140453	broad.mit.edu	37	7	100678206	100678206	+	Missense_Mutation	SNP	C	T	T	rs140475164	byFrequency	TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr7:100678206C>T	uc003uxp.1	+	3	3562	c.3509C>T	c.(3508-3510)ACG>ATG	p.T1170M	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1170	Extracellular (Potential).|59 X approximate tandem repeats.|17.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTCAGCACCACGCTGGTGGTC	0.522000													8	425	---	---	---	---	0	0	0.003080	0	0
SRPK2	6733	broad.mit.edu	37	7	104782687	104782687	+	Silent	SNP	T	C	C			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr7:104782687T>C	uc003vct.2	-	10	1465	c.1278A>G	c.(1276-1278)ACA>ACG	p.T426T	SRPK2_uc003vcu.2_Silent_p.T426T|SRPK2_uc003vcv.2_Silent_p.T437T|SRPK2_uc003vcw.1_Silent_p.T426T	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	426	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AGCTGCTATATGTGTAATCAC	0.428000													8	139	---	---	---	---	0	0	0.003080	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	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	0.368000	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				30	45	---	---	---	---	0	0	0.008361	0	0
PTENP1	11191	broad.mit.edu	37	9	33676262	33676262	+	Nonsense_Mutation	SNP	G	A	A			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr9:33676262G>A	uc003zth.3	-	1	1157	c.286C>T	c.(286-288)CGA>TGA	p.R96*		NR_023917				SubName: Full=Phosphatase and tensin homolog 2; Flags: Fragment;												0						ATACCAGTTCGTCCCTTTCCA	0.393000													24	99	---	---	---	---	0	0	0.003954	0	0
Unknown	0	broad.mit.edu	37	10	81632350	81632351	+	IGR	INS	-	CA	CA			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr10:81632350_81632351insCA								LOC650623 (183702 upstream) : MBL1P (32303 downstream)																							AAGCTGATATCcacacacacac	0.337													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	18	63778788	63778791	+	IGR	DEL	GAAG	-	-			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr18:63778788_63778791delGAAG								CDH7 (230614 upstream) : CDH19 (392530 downstream)																							aaggaaggaagaaggaaggaagga	0.000													4	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	20	17169112	17169113	+	IGR	INS	-	T	T	rs142333729	by1000genomes	TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr20:17169112_17169113insT								OTOR (436304 upstream) : PCSK2 (37639 downstream)																							AAAAGGCTGCATTTTTTTCTCA	0.416													4	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	11114402	11114402	+	IGR	DEL	A	-	-	rs138581689		TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr21:11114402delA								BAGE (15465 upstream) : None (None downstream)																							ACTTTCTGTCAAAAAAAGTGA	0.254													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	22	20286123	20286124	+	IGR	DEL	CA	-	-			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr22:20286123_20286124delCA								RTN4R (30307 upstream) : DGCR6L (15678 downstream)																							AGGGAAGAACCACAGGGCTGCA	0.693													2	4	---	---	---	---					
FGFRL1	53834	broad.mit.edu	37	4	1019055	1019056	+	Frame_Shift_Del	DEL	CA	-	-			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr4:1019055_1019056delCA	uc003gce.2	+	7	1596_1597	c.1435_1436delCA	c.(1435-1437)CACfs	p.H479fs	FGFRL1_uc003gcf.2_Frame_Shift_Del_p.H479fs|FGFRL1_uc003gcg.2_Frame_Shift_Del_p.H479fs|FGFRL1_uc010ibo.2_Frame_Shift_Del_p.H479fs	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	479	His-rich.|Cytoplasmic (Potential).				regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			cacagacatccacacacacaca	0.460													4	9	---	---	---	---					
CCT5	22948	broad.mit.edu	37	5	10250047	10250047	+	5'Flank	DEL	C	-	-	rs2607301		TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr5:10250047delC	uc003jeq.2	+						FAM173B_uc003jeo.2_5'Flank|FAM173B_uc003jep.2_5'Flank|FAM173B_uc010itr.2_5'Flank|CCT5_uc011cmq.1_5'Flank|CCT5_uc003jer.2_5'Flank|CCT5_uc010its.2_5'Flank|CCT5_uc011cmr.1_5'Flank|CCT5_uc011cms.1_5'Flank|CCT5_uc011cmt.1_5'Flank	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)						'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						aaaaaaaaaaCCGGAAATGGG	0.423													3	4	---	---	---	---					
IL17F	112744	broad.mit.edu	37	6	52109409	52109409	+	5'Flank	DEL	T	-	-	rs3215541		TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr6:52109409delT	uc003pam.1	-							NM_052872	NP_443104	Q96PD4	IL17F_HUMAN	interleukin 17F precursor						cartilage development|inflammatory response|lymphotoxin A biosynthetic process|negative regulation of angiogenesis|proteoglycan metabolic process|regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|regulation of interleukin-2 biosynthetic process|regulation of interleukin-6 biosynthetic process|regulation of interleukin-8 biosynthetic process|regulation of transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|cytokine binding|protein homodimerization activity			ovary(1)	1	Lung NSC(77;0.116)					AATGCAGGGGTTTTTTTTTTT	0.418													5	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	56336022	56336025	+	IGR	DEL	TCTC	-	-			TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chr7:56336022_56336025delTCTC								PSPH (151932 upstream) : DKFZp434L192 (227891 downstream)																							ctgctttctttctctctctctttc	0.010													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	100165574	100165575	+	IGR	INS	-	A	A	rs36011977		TCGA-DJ-A1QF-01A-12D-A14W-08	TCGA-DJ-A1QF-10A-01D-A14W-08									Somatic	Phase_I	Capture				Illumina GAIIx	b21fe815-1958-4e1f-ad92-ae5c83303c82	6c5b9e0f-d833-440a-89ff-a5fb5f8b7579	g.chrX:100165574_100165575insA								NOX1 (36240 upstream) : XKRX (2856 downstream)																							aattccgtcttaaaaaaaaaaa	0.233													5	5	---	---	---	---					
