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
ZNF878	729747	broad.mit.edu	37	19	12155673	12155673	+	Missense_Mutation	SNP	A	C	C			TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr19:12155673A>C	uc002mta.1	-	5	684	c.684T>G	c.(682-684)AGT>AGG	p.S228R		NM_001080404	NP_001073873	C9JN71	ZN878_HUMAN	zinc finger protein 878	181	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						AACTGGGAAAACTGAATGCTT	0.403000													3	208	---	---	---	---	0	0	0.004672	0	0
MMADHC	27249	broad.mit.edu	37	2	150426631	150426631	+	Nonsense_Mutation	SNP	G	A	A	rs118204048		TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr2:150426631G>A	uc002txb.2	-	7	1253	c.748C>T	c.(748-750)CGA>TGA	p.R250*	MMADHC_uc002txc.2_Nonsense_Mutation_p.R250*|MMADHC_uc010fnu.2_Nonsense_Mutation_p.R284*	NM_015702	NP_056517	Q9H3L0	MMAD_HUMAN	methylmalonic aciduria (cobalamin deficiency)	250						mitochondrion				central_nervous_system(1)|skin(1)	2						CCTAAATGTCGGTAGCGTTCA	0.368000													3	42	---	---	---	---	0	0	0.004672	0	0
PPAPDC2	403313	broad.mit.edu	37	9	4662738	4662738	+	Silent	SNP	G	C	C			TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr9:4662738G>C	uc003zin.2	+	1	441	c.363G>C	c.(361-363)GCG>GCC	p.A121A	C9orf68_uc003zik.2_Intron|C9orf68_uc003zil.2_Intron|C9orf68_uc010mhj.2_Intron|C9orf68_uc011lly.1_Intron|C9orf68_uc011llz.1_Intron|C9orf68_uc003zim.2_Intron	NM_203453	NP_982278	Q8IY26	PPAC2_HUMAN	phosphatidic acid phosphatase type 2 domain	121						integral to membrane	hydrolase activity				0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.026)		GGGTGTGCGCGGGAGAGAGCT	0.657000											OREG0019084	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	32	---	---	---	---	0	0	0.024245	0	0
GNL3L	54552	broad.mit.edu	37	X	54581094	54581094	+	Missense_Mutation	SNP	A	T	T			TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chrX:54581094A>T	uc004dth.1	+	14	1554	c.1415A>T	c.(1414-1416)GAT>GTT	p.D472V	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	472					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						AAAATAGCAGATGCCATTGAA	0.483000													4	78	---	---	---	---	0	0	0.021553	0	0
Unknown	0	broad.mit.edu	37	2	96517784	96517786	+	IGR	DEL	TAA	-	-	rs113889919		TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr2:96517784_96517786delTAA								TRIM43 (252317 upstream) : LOC729234 (158513 downstream)																							AAAGACATACTAATTATCATAAC	0.291													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	9857293	9857293	+	IGR	DEL	T	-	-	rs71251986		TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr21:9857293delT								None (None upstream) : None (None downstream)																							GCAAGGATGGTGCCTTGCCTG	0.602													4	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	22813177	22813178	+	IGR	INS	-	C	C	rs145036723	by1000genomes	TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr7:22813177_22813178insC								IL6 (41558 upstream) : TOMM7 (39076 downstream)																							TCCTAGATAAGCCCCTACACTC	0.337													3	4	---	---	---	---					
PRKDC	5591	broad.mit.edu	37	8	48774649	48774649	+	Frame_Shift_Del	DEL	G	-	-			TCGA-EL-A3H3-01A-11D-A202-08	TCGA-EL-A3H3-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	59a10c8a-5ba5-40f2-a72b-4febca3f8871	fd8ecb34-a0b7-4c8e-a43a-4f1b3fdb14fa	g.chr8:48774649delG	uc003xqi.2	-	45	6016	c.5959delC	c.(5959-5961)CGCfs	p.R1987fs	PRKDC_uc003xqj.2_Frame_Shift_Del_p.R1987fs|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1987					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAATTATAGCGGCGCTTCAGG	0.323								NHEJ					2	4	---	---	---	---					
