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_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
PELP1	27043	broad.mit.edu	37	17	4575893	4575893	+	Missense_Mutation	SNP	A	A	G			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr17:4575893A>G	ENST00000301396.4	-	16	3050	c.2825T>C	c.(2824-2826)cTg>cCg	p.L942P	PELP1_ENST00000574876.1_Missense_Mutation_p.L798P|PELP1_ENST00000572293.1_Missense_Mutation_p.L848P|PELP1_ENST00000269230.7_Missense_Mutation_p.L708P|PELP1_ENST00000436683.2_Missense_Mutation_p.L651P			Q8IZL8	PELP1_HUMAN	proline, glutamate and leucine rich protein 1	798	Glu-rich.				transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	15						TGGGGGTGGCAGGGGGGGAAG	0.612000													3	22					0	0	1	0	0
PGR	5241	broad.mit.edu	37	11	100922214	100922214	+	Silent	SNP	T	T	C			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr11:100922214T>C	ENST00000325455.5	-	5	3751	c.2298A>G	c.(2296-2298)agA>agG	p.R766R	PGR_ENST00000263463.5_Silent_p.R664R|PGR_ENST00000534013.1_Silent_p.R172R	NM_000926.4|NM_001202474.1	NP_000917.3|NP_001189403.1	P06401	PRGR_HUMAN	progesterone receptor	766	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(4)|liver(1)|lung(18)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	36		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	GTTTGTAGGATCTCCATCCTA	0.343000													24	45					0	0	1	0	0
CHEK2P2	0	broad.mit.edu	37	15	20496770	20496770	+	RNA	SNP	T	T	C	rs3865047	by1000genomes	TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr15:20496770T>C	ENST00000555186.1	+	0	823					NR_038836.1																						TTATAGTGTGTATTTTAATTA	0.353000													5	25					0	0	1	0	0
ZNF679	168417	broad.mit.edu	37	7	63727074	63727074	+	Missense_Mutation	SNP	A	A	G			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr7:63727074A>G	ENST00000421025.1	+	5	1332	c.1063A>G	c.(1063-1065)Aaa>Gaa	p.K355E	ZNF679_ENST00000255746.4_Missense_Mutation_p.K355E	NM_001159524.1|NM_153363.2	NP_001152996.1|NP_699194.2	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	355					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(2)|kidney(3)|lung(11)|skin(1)|stomach(1)	18						CTACAAATGTAAAGAATGTGG	0.398000													3	21					0	0	1	0	0
HERC3	8916	broad.mit.edu	37	4	89577214	89577214	+	Missense_Mutation	SNP	A	A	T	rs2972040	by1000genomes	TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr4:89577214A>T	ENST00000407637.1	+	9	1263	c.1097A>T	c.(1096-1098)aAg>aTg	p.K366M	HERC3_ENST00000402738.1_Intron|HERC3_ENST00000264345.3_Intron			Q15034	HERC3_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 3	0					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			NS(1)|breast(1)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|prostate(2)|skin(2)	45				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TGGAATTTAAAGGTATTTTAA	0.388000													4	34					0	0	1	0	0
MUC5B	727897	broad.mit.edu	37	11	1268402	1268402	+	Missense_Mutation	SNP	G	G	A			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr11:1268402G>A	ENST00000447027.1	+	31	10359	c.10301G>A	c.(10300-10302)aGc>aAc	p.S3434N	MUC5B_ENST00000529681.1_Missense_Mutation_p.S3431N|RP11-532E4.2_ENST00000532061.2_RNA			Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	3431	17 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding	p.S3410N(1)		cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		gccaccagcagcacAGTGACT	0.682000													3	16					0	0	1	0	0
KIAA1683	80726	broad.mit.edu	37	19	18368857	18368857	+	Silent	SNP	G	G	A			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr19:18368857G>A	ENST00000392413.3	-	4	3452	c.3237C>T	c.(3235-3237)gcC>gcT	p.A1079A	KIAA1683_ENST00000600359.2_Silent_p.A846A|KIAA1683_ENST00000600328.2_Silent_p.A892A	NM_001145304.1|NM_001145305.1|NM_025249.3	NP_001138776.1|NP_001138777.1|NP_079525.1	Q9H0B3	K1683_HUMAN	KIAA1683	1090						mitochondrion				breast(1)|endometrium(7)|kidney(2)|large_intestine(7)|lung(11)|ovary(2)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	37						CAGCACCCCTGGCTGGCTCCC	0.657000													48	123					0	0	1	0	0
FMN2	56776	broad.mit.edu	37	1	240255569	240255571	+	In_Frame_Del	DEL	GGC	GGC	-	rs71929261		TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr1:240255569_240255571delGGC	ENST00000319653.9	+	1	390_392	c.160_162delGGC	c.(160-162)del	p.G59del		NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	59					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding	p.G197delG(1)		NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GGGGGGAgggggcggcggcggcg	0.665													7	10	---	---	---	---					
CTD-2049J23.2	0	broad.mit.edu	37	3	159820698	159820698	+	RNA	DEL	A	A	-			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr3:159820698delA	ENST00000497452.1	-	0	517																											TGGAacagtgaaaaaaaaaag	0.279													2	4	---	---	---	---					
FAM162B	221303	broad.mit.edu	37	6	117086593	117086593	+	Frame_Shift_Del	DEL	G	G	-			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr6:117086593delG	ENST00000368557.4	-	1	293	c.147delC	c.(145-147)ccfs	p.P49fs		NM_001085480.2	NP_001078949.1	Q5T6X4	F162B_HUMAN	family with sequence similarity 162, member B	49						integral to membrane				large_intestine(2)|lung(4)	6						CAGAATTGCTGGGGGCCCCGC	0.771													2	4	---	---	---	---					
AC005077.5	0	broad.mit.edu	37	7	75804672	75804673	+	RNA	INS	-	-	A			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr7:75804672_75804673insA	ENST00000437494.1	+	0	57																											catctcgaaccaaaaaaaaaag	0.545													2	4	---	---	---	---					
RP11-586K2.1	0	broad.mit.edu	37	8	89498122	89498122	+	RNA	DEL	A	A	-			TCGA-EL-A3ZN-01A-11D-A23M-08	TCGA-EL-A3ZN-11A-11D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	72a9cae6-bfb5-44e3-a869-2afeb05d7cb8	5fdac115-dce2-4082-b319-ff754a29233f	g.chr8:89498122delA	ENST00000521433.1	+	0	179				RP11-586K2.1_ENST00000523254.1_RNA																							aacagctatgaaaaaaaaaac	0.383													2	4	---	---	---	---					
