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
KCNH3	23416	broad.mit.edu	37	12	49938149	49938149	+	Silent	SNP	C	C	T			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr12:49938149C>T	ENST00000257981.6	+	7	1433	c.1173C>T	c.(1171-1173)tcC>tcT	p.S391S		NM_012284.1	NP_036416.1	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 3	391					regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity			NS(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(20)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	36						GCAGCGAATCCGAGCTGCCTG	0.612000													14	19					0	0	1	0	0
MYH14	79784	broad.mit.edu	37	19	50720881	50720881	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr19:50720881G>A	ENST00000440075.2	+	3	462	c.415G>A	c.(415-417)Ggc>Agc	p.G139S	MYH14_ENST00000598205.1_Missense_Mutation_p.G139S|MYH14_ENST00000596571.1_Missense_Mutation_p.G139S|MYH14_ENST00000601313.1_Missense_Mutation_p.G139S|MYH14_ENST00000262269.8_Missense_Mutation_p.G139S|MYH14_ENST00000425460.1_Missense_Mutation_p.G139S|MYH14_ENST00000376970.2_Missense_Mutation_p.G139S			Q7Z406	MYH14_HUMAN	myosin, heavy chain 14, non-muscle	139	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GACGTACTCCGGCCTTTTCTG	0.602000													28	50					0	0	1	0	0
ZC3H7B	23264	broad.mit.edu	37	22	41735127	41735127	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr22:41735127G>A	ENST00000352645.4	+	9	1005	c.748G>A	c.(748-750)Gac>Aac	p.D250N	ZC3H7B_ENST00000351589.4_Missense_Mutation_p.D250N	NM_017590.4	NP_060060.3	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	266					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(11)|ovary(3)|prostate(3)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(3)	38						CCCCAGCACCGACAGCCTGGA	0.662000													25	40					0	0	1	0	0
SLC52A1	55065	broad.mit.edu	37	17	4937900	4937900	+	Translation_Start_Site	SNP	A	A	G			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr17:4937900A>G	ENST00000512825.2	-	2	1413	c.2T>C	c.(1-3)aTg>aCg	p.M1T	SLC52A1_ENST00000254853.5_Start_Codon_SNP_p.M1T|SLC52A1_ENST00000424747.1_Start_Codon_SNP_p.M1T			Q9NWF4	RFT_HUMAN	solute carrier family 52 (riboflavin transporter), member 1	1						integral to plasma membrane	receptor activity|riboflavin transporter activity										GGGTGCTGCCATTCAGCCCAA	0.597000													14	16					0	0	1	0	0
PIK3CB	5291	broad.mit.edu	37	3	138382751	138382751	+	Silent	SNP	G	G	A			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr3:138382751G>A	ENST00000477593.1	-	20	2866	c.2793C>T	c.(2791-2793)ggC>ggT	p.G931G	PIK3CB_ENST00000289153.2_Silent_p.G931G|PIK3CB_ENST00000544716.1_Silent_p.G382G			P42338	PK3CB_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta	931	PI3K/PI4K.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			NS(1)|breast(3)|endometrium(5)|kidney(2)|large_intestine(4)|lung(17)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(4)	41						AGCTCACCTGGCCAGTTTTTT	0.433000													3	22					0	0	1	0	0
PRKACA	5566	broad.mit.edu	37	19	14208594	14208594	+	Silent	SNP	G	G	A			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr19:14208594G>A	ENST00000308677.4	-	6	724	c.528C>T	c.(526-528)gaC>gaT	p.D176D	PRKACA_ENST00000590853.1_Intron|PRKACA_ENST00000589994.1_Silent_p.D168D|PRKACA_ENST00000350356.3_5'UTR	NM_002730.3	NP_002721.1	P17612	KAPCA_HUMAN	protein kinase, cAMP-dependent, catalytic, alpha	176	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|regulation of insulin secretion|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|cAMP-dependent protein kinase inhibitor activity|protein kinase binding			central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)	16						AGCCCTGCTGGTCAATGAGCA	0.612000													19	31					0	0	1	0	0
IPO8	10526	broad.mit.edu	37	12	30818753	30818753	+	Silent	SNP	A	A	G			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr12:30818753A>G	ENST00000256079.4	-	12	1586	c.1248T>C	c.(1246-1248)tgT>tgC	p.C416C	IPO8_ENST00000544829.1_Silent_p.C211C	NM_006390.3	NP_006381.2	O15397	IPO8_HUMAN	importin 8	416					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(16)|liver(1)|lung(22)|prostate(2)|skin(2)|urinary_tract(2)	52	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					GGATTTGATAACAGAATGCCA	0.378000													17	26					0	0	1	0	0
COL4A5	1287	broad.mit.edu	37	X	107936078	107936078	+	Silent	SNP	C	C	T			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chrX:107936078C>T	ENST00000328300.6	+	50	4873	c.4629C>T	c.(4627-4629)taC>taT	p.Y1543Y	COL4A5_ENST00000361603.2_Silent_p.Y1537Y	NM_033380.2	NP_203699.1	P29400	CO4A5_HUMAN	collagen, type IV, alpha 5	1537	Collagen IV NC1.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			NS(1)|breast(2)|central_nervous_system(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(25)|lung(32)|ovary(4)|prostate(2)|skin(8)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	99						ACTATTCTTACTGGCTCTCTA	0.478000									Alport syndrome with Diffuse Leiomyomatosis				29	43					0	0	1	0	0
TAF1	6872	broad.mit.edu	37	X	70603867	70603867	+	Missense_Mutation	SNP	C	C	T			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chrX:70603867C>T	ENST00000449580.1	+	13	2051	c.2000C>T	c.(1999-2001)aCa>aTa	p.T667I	TAF1_ENST00000373790.4_Missense_Mutation_p.T667I|TAF1_ENST00000276072.3_Missense_Mutation_p.T688I|TAF1_ENST00000423759.1_Missense_Mutation_p.T688I			P21675	TAF1_HUMAN	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa	667					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			breast(13)|central_nervous_system(6)|cervix(1)|endometrium(25)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(16)|lung(34)|ovary(9)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(3)	124	Renal(35;0.156)	all_lung(315;0.000321)				TTTATGCGCACACCTCAGGAC	0.448000													26	35					0	0	1	0	0
BAZ2A	11176	broad.mit.edu	37	12	57009121	57009121	+	Missense_Mutation	SNP	T	T	C			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr12:57009121T>C	ENST00000179765.5	-	3	606	c.407A>G	c.(406-408)cAt>cGt	p.H136R	BAZ2A_ENST00000379441.3_Missense_Mutation_p.H138R|BAZ2A_ENST00000551812.1_Missense_Mutation_p.H138R|BAZ2A_ENST00000549884.1_Missense_Mutation_p.H136R			Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	138					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding			breast(1)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(15)|urinary_tract(1)	31						GTTAGTGTTATGACTTGGGGA	0.547000													5	41					0	0	1	0	0
AHNAK2	113146	broad.mit.edu	37	14	105417094	105417094	+	Missense_Mutation	SNP	G	G	T			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr14:105417094G>T	ENST00000333244.5	-	7	4813	c.4694C>A	c.(4693-4695)cCt>cAt	p.P1565H	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1565						nucleus				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCGGACACAGGGCCCTCTGG	0.607000													4	145					0.150653	0.150653	1	1	0
RFX3	5991	broad.mit.edu	37	9	3263080	3263080	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr9:3263080G>A	ENST00000382004.3	-	14	1771	c.1460C>T	c.(1459-1461)gCc>gTc	p.A487V	RFX3_ENST00000302303.1_Missense_Mutation_p.A487V|RFX3_ENST00000358730.2_Missense_Mutation_p.A487V	NM_134428.1	NP_602304.1	P48380	RFX3_HUMAN	regulatory factor X, 3 (influences HLA class II expression)	487					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(11)|large_intestine(3)|lung(14)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	40				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		ACTTACAGCGGCAACCTGTAA	0.448000													3	40					0	0	1	0	0
PLCD4	84812	broad.mit.edu	37	2	219483500	219483500	+	Frame_Shift_Del	DEL	C	C	-			TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr2:219483500delC	ENST00000450993.2	+	4	719	c.380delC	c.(379-381)acfs	p.T127fs	PLCD4_ENST00000417849.1_Frame_Shift_Del_p.T127fs|PLCD4_ENST00000432688.1_Frame_Shift_Del_p.T127fs	NM_032726.3	NP_116115.1	Q9BRC7	PLCD4_HUMAN	phospholipase C, delta 4	127					intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(7)|ovary(3)|prostate(1)|urinary_tract(3)	23		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GATCTTGTCACCAGCATGGAC	0.602													2	4	---	---	---	---					
TRAV24	0	broad.mit.edu	37	14	22573825	22573826	+	RNA	INS	-	-	A	rs33991650	by1000genomes	TCGA-QR-A70D-01A-11D-A35D-08	TCGA-QR-A70D-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ff003cbc-050a-4017-9004-2e05b1f5c6e0	01a5d489-f653-4bd8-ad68-d244e1bae50a	g.chr14:22573825_22573826insA	ENST00000390453.1	+	0	55																											GACTCTTTTTTAAAAAAACAGG	0.450													2	4	---	---	---	---					
