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
FUBP1	8880	broad.mit.edu	37	1	78422352	78422352	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr1:78422352C>T	uc001dii.2	-	17	1699	c.1610G>A	c.(1609-1611)TGG>TAG	p.W537*	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Nonsense_Mutation_p.W558*	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	537	Pro-rich.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						ATAAGCAGCCCAAGCTGCTGA	0.458000													23	5					0	0	0.016522	0	0
KIAA0907	22889	broad.mit.edu	37	1	155887393	155887393	+	Missense_Mutation	SNP	T	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr1:155887393T>G	uc001fmi.1	-	11	1361	c.1337A>C	c.(1336-1338)CAG>CCG	p.Q446P	KIAA0907_uc001fmj.1_Missense_Mutation_p.Q446P|KIAA0907_uc009wrk.1_Missense_Mutation_p.Q303P|KIAA0907_uc009wrl.1_RNA	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	446	Pro-rich.										0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			gggctggggctggggctgggg	0.448000													8	21					0	0	0.004482	0	0
TAGLN2	8407	broad.mit.edu	37	1	159890149	159890149	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr1:159890149T>C	uc001fum.1	-	1	201	c.151A>G	c.(151-153)AAC>GAC	p.N51D	CCDC19_uc001ful.2_Intron|TAGLN2_uc001fun.1_Missense_Mutation_p.N51D|TAGLN2_uc001fuo.1_Missense_Mutation_p.N51D|TAGLN2_uc010piy.1_Missense_Mutation_p.N51D	NM_003564	NP_003555	P37802	TAGL2_HUMAN	transgelin 2	51	CH.				muscle organ development	nuclear membrane|plasma membrane	protein binding				0	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TTCTGGAAGTTCTCGCGTCCA	0.522000													40	4					0	0	0.011902	0	0
NCOA4	8031	broad.mit.edu	37	10	51579175	51579175	+	Missense_Mutation	SNP	A	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr10:51579175A>C	uc001jis.3	+	2	237	c.34A>C	c.(34-36)AGT>CGT	p.S12R	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Missense_Mutation_p.S28R|NCOA4_uc010qhd.1_Missense_Mutation_p.S28R|NCOA4_uc010qhe.1_Intron|NCOA4_uc010qhf.1_Intron|NCOA4_uc001jit.2_Missense_Mutation_p.S12R|NCOA4_uc009xoo.2_Missense_Mutation_p.S12R	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	12					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						TGGCAGCTCCAGTAATAGAGA	0.408000			T	RET	papillary thyroid 								12	60					0	0	0.016723	0	0
HKDC1	80201	broad.mit.edu	37	10	71007297	71007297	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr10:71007297C>T	uc001jpf.3	+	9	1346	c.1213C>T	c.(1213-1215)CGG>TGG	p.R405W	HKDC1_uc010qje.1_Missense_Mutation_p.R268W	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	405					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						GAAGGTGGAACGGCTCCGGAC	0.612000													17	35					0	0	0.004990	0	0
ACTA2	59	broad.mit.edu	37	10	90708581	90708581	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr10:90708581A>G	uc001kfp.2	-	2	223	c.107T>C	c.(106-108)ATT>ACT	p.I36T	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Intron|ACTA2_uc001kfq.2_Missense_Mutation_p.I36T|ACTA2_uc010qmz.1_Missense_Mutation_p.I36T	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	36					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		ACGTCCCACAATGGATGGGAA	0.502000													57	55					0	0	0.014410	0	0
MEN1	4221	broad.mit.edu	37	11	64573758	64573758	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr11:64573758C>T	uc001obj.2	-	7	1083	c.1010G>A	c.(1009-1011)CGC>CAC	p.R337H	MEN1_uc001obk.2_Missense_Mutation_p.R337H|MEN1_uc001obl.2_Missense_Mutation_p.R297H|MEN1_uc001obm.2_Missense_Mutation_p.R332H|MEN1_uc001obn.2_Missense_Mutation_p.R337H|MEN1_uc001obo.2_Missense_Mutation_p.R337H|MEN1_uc001obp.2_Missense_Mutation_p.R332H|MEN1_uc001obq.2_Missense_Mutation_p.R337H|MEN1_uc001obr.2_Missense_Mutation_p.R337H	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	337	Interaction with FANCD2.				DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding			parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						CCGCACATTGCGGTTGCGACA	0.602000			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1		OREG0004014	type=REGULATORY REGION|Gene=MEN1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	47	64					0	0	0.011902	0	0
EP400	57634	broad.mit.edu	37	12	132547087	132547087	+	Silent	SNP	G	A	A	rs12366766		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr12:132547087G>A	uc001ujn.2	+	46	8210	c.8175G>A	c.(8173-8175)CAG>CAA	p.Q2725Q	EP400_uc001ujl.2_Silent_p.Q2724Q|EP400_uc001ujm.2_Silent_p.Q2644Q|EP400_uc001ujp.2_5'UTR	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2761	Poly-Gln.|Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		agcagcagcagcaacaacagc	0.289000													4	46					0	0	0.009096	0	0
MTUS2	23281	broad.mit.edu	37	13	29600879	29600879	+	Missense_Mutation	SNP	G	A	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr13:29600879G>A	uc001usl.3	+	1	2132	c.2074G>A	c.(2074-2076)GAG>AAG	p.E692K		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	682	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TCCCCACGAAGAGAAGGCAGC	0.587000													16	20					0	0	0.004007	0	0
CPNE6	9362	broad.mit.edu	37	14	24543956	24543956	+	Silent	SNP	C	T	T	rs149746359		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr14:24543956C>T	uc001wll.2	+	7	723	c.624C>T	c.(622-624)CGC>CGT	p.R208R	CPNE6_uc010tnv.1_Silent_p.R263R|CPNE6_uc001wlm.2_Silent_p.R33R|CPNE6_uc001wln.2_5'Flank	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	208	C2 2.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		AGCCGTTCCGCCTGTCCCTGC	0.552000													3	25					0	0	0.004672	0	0
AKAP6	9472	broad.mit.edu	37	14	33293788	33293788	+	Missense_Mutation	SNP	G	A	A	rs140237441	byFrequency	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr14:33293788G>A	uc001wrq.2	+	13	6939	c.6769G>A	c.(6769-6771)GGA>AGA	p.G2257R		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2257					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GGAAAGTTCCGGAAAACCAGG	0.438000													27	35					0	0	0.004656	0	0
JKAMP	51528	broad.mit.edu	37	14	59970666	59970667	+	Missense_Mutation	DNP	TG	AA	AA			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr14:59970666_59970667TG>AA	uc001xei.3	+	7	1356_1357	c.854_855TG>AA	c.(853-855)GTG>GAA	p.V285E	JKAMP_uc001xef.3_Missense_Mutation_p.V271E|JKAMP_uc001xeh.3_Missense_Mutation_p.V265E|JKAMP_uc001xeg.3_Missense_Mutation_p.V279E|JKAMP_uc010try.1_Missense_Mutation_p.V208E|JKAMP_uc001xej.3_Missense_Mutation_p.V208E	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	286	Helical; (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						ATTTCCAGAGTGGATAAACTTG	0.396000													24	32					0	0	0.004672	0	0
GOLGA8DP	100132979	broad.mit.edu	37	15	22709152	22709152	+	Missense_Mutation	SNP	G	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr15:22709152G>T	uc010axw.2	-	11	1245	c.347C>A	c.(346-348)GCG>GAG	p.A116E	GOLGA8DP_uc010axx.2_Missense_Mutation_p.A116E|uc010tzw.1_5'Flank	NM_001012423	NP_001012423			golgi autoantigen, golgin subfamily a, 8E												0						GGCCTGGAGCGCTCCTGCCAC	0.607000													6	30					3.59834e-05	3.76969e-05	0.001168	1	0
RYR3	6263	broad.mit.edu	37	15	33822854	33822854	+	Missense_Mutation	SNP	C	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr15:33822854C>G	uc001zhi.2	+	4	411	c.341C>G	c.(340-342)TCT>TGT	p.S114C	RYR3_uc010bar.2_Missense_Mutation_p.S114C	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	114	Cytoplasmic (By similarity).|MIR 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTGAGGCACTCTTTCAGCGGA	0.512000													7	10					0	0	0.003080	0	0
MFAP1	4236	broad.mit.edu	37	15	44109449	44109449	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr15:44109449T>C	uc001zth.1	-	2	461	c.277A>G	c.(277-279)ATT>GTT	p.I93V		NM_005926	NP_005917	P55081	MFAP1_HUMAN	microfibrillar-associated protein 1	93						microfibril				skin(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.33e-07)		TCTTCACTAATACGGTTCTGT	0.373000													32	61					0	0	0.010818	0	0
GOLGA6L10	647042	broad.mit.edu	37	15	82635117	82635117	+	RNA	SNP	T	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr15:82635117T>C	uc002bgx.2	-	5		c.463A>G						A6NI86	GG6LA_HUMAN	Homo sapiens cDNA FLJ40113 fis, clone TESTI2008621.												0						TTTTTCAATTTCTTGACCCGC	0.383000													3	13					0	0	0.004672	0	0
APPBP2	10513	broad.mit.edu	37	17	58603215	58603215	+	Missense_Mutation	SNP	G	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr17:58603215G>C	uc002iys.1	-	1	366	c.78C>G	c.(76-78)ATC>ATG	p.I26M	APPBP2_uc010ddl.1_Translation_Start_Site	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	26					intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			GGCGGGAGCGGATGTAGTTGT	0.527000													3	40					0	0	0.004672	0	0
TBC1D3P2	440452	broad.mit.edu	37	17	60342234	60342234	+	RNA	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr17:60342234C>T	uc010woz.1	-	14		c.1895G>A				NR_027486				Homo sapiens cDNA FLJ60189 complete cds, highly similar to TBC1 domain family member 3.												0						GTCTGGTGTGCTCCATCTCTG	0.498000													5	39					0	0	0.003080	0	0
XAB2	56949	broad.mit.edu	37	19	7690779	7690779	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr19:7690779C>T	uc002mgx.2	-	6	835	c.809G>A	c.(808-810)GGC>GAC	p.G270D		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	270	HAT 8.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						CTCGAAATGGCCGCTGCGGAT	0.632000								Direct_reversal_of_damage|NER					3	34					0	0	0.004672	0	0
ZNF799	90576	broad.mit.edu	37	19	12491949	12491949	+	Missense_Mutation	SNP	T	C	C	rs11668955	by1000genomes	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr19:12491949T>C	uc002mts.3	-	4	593	c.127A>G	c.(127-129)ACC>GCC	p.T43A				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TAACTGAAGGTTTTCCAAAAT	0.403000													3	38					0	0	0.004672	0	0
TAF1B	9014	broad.mit.edu	37	2	10016065	10016065	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr2:10016065A>G	uc002qzz.2	+	7	725	c.625A>G	c.(625-627)ATG>GTG	p.M209V	TAF1B_uc010exc.2_Missense_Mutation_p.M209V|TAF1B_uc002qzy.3_Missense_Mutation_p.M209V|TAF1B_uc010yja.1_Intron|TAF1B_uc010exd.2_Intron	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	209					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AATCGTGAAGATGACCATGCC	0.413000													52	67					0	0	0.014410	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr2:209113112C>T	uc002vcs.2	-	4	641	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.2_Missense_Mutation_p.R132H|IDH1_uc002vcu.2_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma 								19	39					0	0	0.006122	0	0
LSM14B	149986	broad.mit.edu	37	20	60701373	60701373	+	Missense_Mutation	SNP	C	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr20:60701373C>G	uc010gjy.1	+	3	511	c.305C>G	c.(304-306)TCT>TGT	p.S102C	LSM14B_uc002ybt.2_Missense_Mutation_p.S102C|LSM14B_uc010gjx.1_Missense_Mutation_p.S128C|LSM14B_uc002ybv.2_Missense_Mutation_p.S102C|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	102					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			TCCCTGGGTTCTGCCTCCGCC	0.657000													15	14					0	0	0.004007	0	0
PRIC285	85441	broad.mit.edu	37	20	62200696	62200696	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr20:62200696T>C	uc002yfm.2	-	5	1785	c.893A>G	c.(892-894)AAC>AGC	p.N298S	PRIC285_uc002yfl.1_5'Flank	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	298					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CACGTGGCGGTTGCCAGTGTG	0.697000													6	8					0	0	0.001168	0	0
C21orf99	149992	broad.mit.edu	37	21	14439357	14439357	+	RNA	SNP	C	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr21:14439357C>G	uc002yja.3	+	10		c.2875C>G				NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						TGAATCAGCTCAATCAATCGC	0.274000													3	11					0	0	0.009096	0	0
PBRM1	55193	broad.mit.edu	37	3	52621372	52621372	+	Silent	SNP	G	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr3:52621372G>C	uc003des.2	-	19	3132	c.3120C>G	c.(3118-3120)GTC>GTG	p.V1040V	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Silent_p.V1040V|PBRM1_uc003der.2_Silent_p.V1008V|PBRM1_uc003det.2_Silent_p.V1055V|PBRM1_uc003deu.2_Silent_p.V1055V|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Silent_p.V1040V|PBRM1_uc010hmk.1_Silent_p.V1015V|PBRM1_uc003dey.2_Silent_p.V1015V|PBRM1_uc003dez.1_Silent_p.V1039V|PBRM1_uc003dfb.1_Silent_p.V952V|PBRM1_uc003dfa.1_Silent_p.V386V	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	1040	BAH 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		TTCTTACCTTGACAAACATGA	0.318000			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								29	38					0	0	0.007291	0	0
PLXNA1	5361	broad.mit.edu	37	3	126707544	126707544	+	Silent	SNP	T	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr3:126707544T>G	uc003ejg.2	+	1	43	c.39T>G	c.(37-39)GGT>GGG	p.G13G		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	36	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CAGGCGGGGGTTCACAGCCCC	0.567000													12	11					0	0	0.007413	0	0
FSTL5	56884	broad.mit.edu	37	4	162841556	162841556	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr4:162841556C>T	uc003iqh.2	-	4	845	c.409G>A	c.(409-411)GGA>AGA	p.G137R	FSTL5_uc003iqi.2_Missense_Mutation_p.G136R|FSTL5_uc010iqv.2_Missense_Mutation_p.G136R	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	137						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CTTCATTTACCTTTAAAGAAG	0.378000													20	32					0	0	0.007413	0	0
LOC100133050	100133050	broad.mit.edu	37	5	99715465	99715465	+	RNA	SNP	G	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr5:99715465G>T	uc011cuw.1	-	4		c.445C>A				NR_027503				Homo sapiens glucuronidase, beta pseudogene (LOC100133050), non-coding RNA.												0						TAGTGGCTGGGGCAGAAGGTG	0.577000													3	8					6.4e-05	6.6e-05	0.004672	1	0
SRP19	6728	broad.mit.edu	37	5	112227799	112227799	+	Missense_Mutation	SNP	A	G	G	rs712665	by1000genomes	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr5:112227799A>G	uc011cvv.1	+	4	793	c.538A>G	c.(538-540)AGT>GGT	p.S180G	SRP19_uc011cvu.1_Missense_Mutation_p.S165G|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		TTTAGAAAATAGTACCACATG	0.328000													6	74					0	0	0.001984	0	0
SRP19	6728	broad.mit.edu	37	5	112227939	112227939	+	Silent	SNP	T	C	C	rs712666	by1000genomes	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr5:112227939T>C	uc011cvv.1	+	4	933	c.678T>C	c.(676-678)TCT>TCC	p.S226S	SRP19_uc011cvu.1_Silent_p.S211S|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		TCCCAACATCTAGTCCTACCC	0.453000													4	79					0	0	0.009096	0	0
GPR110	266977	broad.mit.edu	37	6	46976957	46976957	+	Silent	SNP	G	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr6:46976957G>C	uc003oyt.2	-	11	2413	c.2214C>G	c.(2212-2214)TCC>TCG	p.S738S	GPR110_uc011dwl.1_Silent_p.S426S	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	738	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						TGCTTCCATTGGACCAGTTAA	0.478000													4	69					0	0	0.009096	0	0
TBP	6908	broad.mit.edu	37	6	170871052	170871052	+	Silent	SNP	G	A	A	rs112083427		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr6:170871052G>A	uc003qxt.2	+	3	460	c.228G>A	c.(226-228)CAG>CAA	p.Q76Q	TBP_uc003qxu.2_Silent_p.Q76Q|TBP_uc011ehf.1_Silent_p.Q56Q|TBP_uc011ehg.1_Silent_p.Q76Q	NM_003194	NP_003185	P20226	TBP_HUMAN	TATA box binding protein	76	Poly-Gln.				cell death|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription from RNA polymerase III promoter|viral reproduction	transcription factor TFIIA complex|transcription factor TFIID complex	repressing transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		agcaacagcagcagcagcagc	0.159000													9	49					0	0	0.004482	0	0
LOC402644	402644	broad.mit.edu	37	7	28319234	28319234	+	Missense_Mutation	SNP	A	C	C	rs177484	by1000genomes	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr7:28319234A>C	uc010kuz.1	-	1	85	c.85T>G	c.(85-87)TTT>GTT	p.F29V		NM_001126493	NP_001119965			hypothetical protein LOC402644												0						GTCTTTGGAAACTTTTCTGCA	0.468000													4	76					0	0	0.009096	0	0
PAX4	5078	broad.mit.edu	37	7	127255106	127255106	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr7:127255106C>T	uc010lld.1	-	2	370	c.164G>A	c.(163-165)CGC>CAC	p.R55H	PAX4_uc003vmf.2_Missense_Mutation_p.R53H|PAX4_uc003vmg.1_Missense_Mutation_p.R55H|PAX4_uc003vmh.2_Missense_Mutation_p.R53H	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	63	Paired.				cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GACACCTGTGCGGTAGTAACG	0.572000													44	42					0	0	0.010771	0	0
ZNF706	51123	broad.mit.edu	37	8	102213947	102213947	+	Missense_Mutation	SNP	A	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr8:102213947A>T	uc003yka.2	-	3	438	c.23T>A	c.(22-24)ATT>AAT	p.I8N	ZNF706_uc003ykb.2_Missense_Mutation_p.I8N	NM_001042510	NP_001035975	Q9Y5V0	ZN706_HUMAN	HSPC038 protein	8						intracellular	zinc ion binding			ovary(2)	2	all_cancers(14;3.3e-07)|all_epithelial(15;3.47e-09)|Lung NSC(17;3.44e-05)|all_lung(17;0.000117)		Epithelial(11;8.57e-11)|all cancers(13;1.43e-08)|OV - Ovarian serous cystadenocarcinoma(57;1.43e-05)			CTGAGACTGAATTTTCTGCTG	0.393000													10	27					0	0	0.004990	0	0
MLLT3	4300	broad.mit.edu	37	9	20414343	20414343	+	Silent	SNP	A	G	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr9:20414343A>G	uc003zoe.2	-	5	760	c.501T>C	c.(499-501)AGT>AGC	p.S167S	MLLT3_uc011lne.1_Silent_p.S135S|MLLT3_uc011lnf.1_Silent_p.S164S|MLLT3_uc003zof.2_5'UTR|MLLT3_uc011lng.1_Missense_Mutation_p.V129A	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	167	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctactgctgctgc	0.139000			T	MLL	ALL								8	61					0	0	0.008291	0	0
HSPA5	3309	broad.mit.edu	37	9	128001229	128001229	+	Silent	SNP	C	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr9:128001229C>T	uc004bpn.2	-	5	1243	c.987G>A	c.(985-987)GAG>GAA	p.E329E		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	329					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	CCATGTTGAGCTCTTCAAATT	0.418000										Prostate(1;0.17)			4	65					0	0	0.009096	0	0
ANGPTL2	23452	broad.mit.edu	37	9	129853996	129853996	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr9:129853996T>C	uc004bqr.1	-	4	1735	c.1235A>G	c.(1234-1236)AAC>AGC	p.N412S	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Missense_Mutation_p.N110S	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	412	Fibrinogen C-terminal.				multicellular organismal development|signal transduction	extracellular space	receptor binding				0						CTGCTTGCCGTTGTGCCATGT	0.537000													109	129					0	0	0.014410	0	0
TUBBP5	643224	broad.mit.edu	37	9	141070116	141070116	+	Missense_Mutation	SNP	G	A	A	rs142836124	by1000genomes	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr9:141070116G>A	uc004com.2	+	3	275	c.14G>A	c.(13-15)CGC>CAC	p.R5H	TUBBP5_uc010ncq.2_Missense_Mutation_p.R119H					RecName: Full=Putative tubulin beta-4q chain;												0						GACTCTGTGCGCTCGGGGCCC	0.687000													5	53					0	0	0.001168	0	0
MED14	9282	broad.mit.edu	37	X	40572233	40572233	+	Silent	SNP	T	C	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chrX:40572233T>C	uc004dex.3	-	6	854	c.714A>G	c.(712-714)GGA>GGG	p.G238G	MED14_uc010nhe.1_Silent_p.G122G	NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	238	Interaction with STAT2.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						CAGGGTCATCTCCCATCACAG	0.383000													15	6					0	0	0.004990	0	0
MICALCL	84953	broad.mit.edu	37	11	12316384	12316389	+	In_Frame_Del	DEL	CTCCTA	-	-	rs3812754	byFrequency	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr11:12316384_12316389delCTCCTA	uc001mkg.1	+	3	1697_1702	c.1406_1411delCTCCTA	c.(1405-1413)CCTCCTACA>CCA	p.PT470del		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	470_471					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		cctcctcctcctcctACAGCGGGAGG	0.432													11	3	---	---	---	---					
KRT1	3848	broad.mit.edu	37	12	53069236	53069256	+	In_Frame_Del	DEL	TAGCTGCTACCTCCGGAGCCA	-	-	rs66529359		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr12:53069236_53069256delTAGCTGCTACCTCCGGAGCCA	uc001sau.1	-	9	1715_1735	c.1656_1676delTGGCTCCGGAGGTAGCAGCTA	c.(1654-1677)TATGGCTCCGGAGGTAGCAGCTAC>TAC	p.552_559YGSGGSSY>Y	KRT1_uc001sav.1_Splice_Site_p.G556_splice	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	552_559	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						tccggagccgtagctgctacctccggagccatagctgccac	0.000													9	15	---	---	---	---					
IL32	9235	broad.mit.edu	37	16	3119304	3119305	+	Frame_Shift_Ins	INS	-	G	G	rs2981599		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr16:3119304_3119305insG	uc002cto.2	+	6	864_865	c.653_654insG	c.(652-654)GACfs	p.D218fs	IL32_uc002ctk.2_Frame_Shift_Ins_p.D115fs|IL32_uc010uwp.1_Frame_Shift_Ins_p.D152fs|IL32_uc010btb.2_Frame_Shift_Ins_p.D162fs|IL32_uc002ctl.2_Frame_Shift_Ins_p.D172fs|IL32_uc002ctm.2_Frame_Shift_Ins_p.D172fs|IL32_uc002ctn.2_Frame_Shift_Ins_p.D172fs|IL32_uc002cts.3_Frame_Shift_Ins_p.D172fs|IL32_uc002ctp.2_Frame_Shift_Ins_p.D152fs|IL32_uc002ctq.2_Frame_Shift_Ins_p.D218fs|IL32_uc002ctr.2_Frame_Shift_Ins_p.D152fs|IL32_uc002ctt.2_Frame_Shift_Ins_p.D172fs|IL32_uc010uwr.1_Frame_Shift_Ins_p.D132fs|IL32_uc002ctu.2_Frame_Shift_Ins_p.D163fs	NM_004221	NP_004212	P24001	IL32_HUMAN	interleukin 32 isoform B	218					cell adhesion|defense response|immune response	extracellular space	cytokine activity			pancreas(1)	1						CCACGGGGGGACAAGGAGGAGC	0.574													13	138	---	---	---	---					
CIC	23152	broad.mit.edu	37	19	42798786	42798787	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr19:42798786_42798787insA	uc002otf.1	+	19	4398_4399	c.4358_4359insA	c.(4357-4359)CTAfs	p.L1453fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1453					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CTTGGGGAGCTAGAGTATGACA	0.644			T	DUX4	soft tissue sarcoma								25	14	---	---	---	---					
RSPH6A	81492	broad.mit.edu	37	19	46299147	46299149	+	In_Frame_Del	DEL	CCT	-	-			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr19:46299147_46299149delCCT	uc002pdm.2	-	6	2275_2277	c.2132_2134delAGG	c.(2131-2136)GAGGGC>GGC	p.E711del	RSPH6A_uc002pdl.2_In_Frame_Del_p.E447del	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	711	Glu-rich.					intracellular				ovary(1)|central_nervous_system(1)	2						GTctcctcgccctcctcctcctc	0.409													7	64	---	---	---	---					
GZF1	64412	broad.mit.edu	37	20	23345921	23345923	+	In_Frame_Del	DEL	GAG	-	-			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr20:23345921_23345923delGAG	uc010gdb.2	+	3	1075_1077	c.901_903delGAG	c.(901-903)GAGdel	p.E306del	GZF1_uc002wsy.2_In_Frame_Del_p.E306del|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_In_Frame_Del_p.E306del	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	306					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					ggaggaggaagaggaggaggagg	0.384													8	58	---	---	---	---					
PCDH10	57575	broad.mit.edu	37	4	134071550	134071553	+	Frame_Shift_Del	DEL	CAAA	-	-			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr4:134071550_134071553delCAAA	uc003iha.2	+	1	1081_1084	c.255_258delCAAA	c.(253-258)TGCAAAfs	p.C85fs	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Frame_Shift_Del_p.C85fs	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	85_86	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AACAAATCTGCAAACAGAGCCCCT	0.549													30	72	---	---	---	---					
PIK3R1	5295	broad.mit.edu	37	5	67589586	67589591	+	In_Frame_Del	DEL	ATGAAT	-	-	rs17852841		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr5:67589586_67589591delATGAAT	uc003jva.2	+	11	1909_1914	c.1349_1354delATGAAT	c.(1348-1356)CATGAATAT>CAT	p.EY451del	PIK3R1_uc003jvb.2_In_Frame_Del_p.EY451del|PIK3R1_uc003jvc.2_In_Frame_Del_p.EY151del|PIK3R1_uc003jvd.2_In_Frame_Del_p.EY181del|PIK3R1_uc003jve.2_In_Frame_Del_p.EY130del|PIK3R1_uc011crb.1_In_Frame_Del_p.EY121del	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	451_452					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.H450_E451del(2)|p.D434_Q475del(2)|p.G446_Y452>VI(1)|p.E451_Y452del(1)|p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	AAAAAATTACATGAATATAACACTCA	0.277			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			21	27	---	---	---	---					
HDAC2	3066	broad.mit.edu	37	6	114277279	114277280	+	Frame_Shift_Ins	INS	-	T	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr6:114277279_114277280insT	uc003pwd.1	-	5	676_677	c.676_677insA	c.(676-678)ATGfs	p.M226fs	HDAC2_uc003pwc.1_Frame_Shift_Ins_p.M102fs|HDAC2_uc003pwe.1_Frame_Shift_Ins_p.M102fs	NM_001527	NP_001518	Q92769	HDAC2_HUMAN	histone deacetylase 2	132	Histone deacetylase.				blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)	ATTAACAGCCATATCAGTCTGT	0.356													50	64	---	---	---	---					
BHLHE22	27319	broad.mit.edu	37	8	65494037	65494038	+	In_Frame_Ins	INS	-	AGCAGC	AGCAGC			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	g.chr8:65494037_65494038insAGCAGC	uc003xvi.2	+	1	1224_1225	c.690_691insAGCAGC	c.(688-693)insAGCAGC	p.234_235insSS	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	234_235	Basic motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						gcagcagcagcagcagcagcag	0.257													3	5	---	---	---	---					
