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
ZNF778	197320	broad.mit.edu	37	16	89293578	89293578	+	Silent	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr16:89293578C>T	ENST00000433976.2	+	6	1130	c.798C>T	c.(796-798)gcC>gcT	p.A266A	RP11-46C24.6_ENST00000563182.1_RNA|ZNF778_ENST00000306502.6_Silent_p.A224A	NM_001201407.1|NM_182531.3	NP_001188336.1|NP_872337.2	Q96MU6	ZN778_HUMAN	zinc finger protein 778	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(4)|kidney(1)|large_intestine(4)|lung(11)|prostate(2)|skin(2)	24				BRCA - Breast invasive adenocarcinoma(80;0.0269)		GGTACACTGCCTACCTTACTG	0.527000													4	85					0	0	1	0	0
RGPD3	653489	broad.mit.edu	37	2	107049631	107049631	+	Silent	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr2:107049631C>T	ENST00000409886.3	-	16	2403	c.2316G>A	c.(2314-2316)gcG>gcA	p.A772A	RGPD3_ENST00000304514.7_Silent_p.A772A	NM_001144013.1	NP_001137485.1	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	772					intracellular transport		binding	p.A772A(4)		breast(2)|central_nervous_system(1)|endometrium(50)|kidney(4)|lung(11)|ovary(1)|urinary_tract(2)	71						TTTCTGAATCCGCATTTCGCA	0.373000													5	380					0	0	1	0	0
BMS1P20	96610	broad.mit.edu	37	22	22663086	22663086	+	RNA	SNP	T	T	G	rs1054157	by1000genomes	TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr22:22663086T>G	ENST00000426066.1	+	0	525					NR_027293.1																						AGCTGCCACATAAGTTGTCCT	0.299000													4	42					0	0	1	0	0
TRAJ22	28733	broad.mit.edu	37	14	22991074	22991074	+	RNA	SNP	A	A	G			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr14:22991074A>G	ENST00000390515.1	+	0	59																											TGACTGTTTTACCTGGTAGGC	0.403000													131	258					0	0	1	0	0
HMGB3	3149	broad.mit.edu	37	X	150156360	150156360	+	Silent	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chrX:150156360G>A	ENST00000325307.7	+	5	672	c.576G>A	c.(574-576)gaG>gaA	p.E192E	HMGB3_ENST00000448905.2_Silent_p.E192E	NM_005342.2	NP_005333.2	O15347	HMGB3_HUMAN	high mobility group box 3	192	Asp/Glu-rich (acidic).				DNA recombination|multicellular organismal development	chromosome|nucleus	DNA bending activity|double-stranded DNA binding	p.E192E(1)		endometrium(3)|large_intestine(2)|lung(2)|skin(1)	8	Acute lymphoblastic leukemia(192;6.56e-05)					aggaagaagaggaggaggagg	0.443000													4	58					0	0	1	0	0
PTPN13	5783	broad.mit.edu	37	4	87696669	87696669	+	Missense_Mutation	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr4:87696669G>A	ENST00000436978.1	+	35	6250	c.5770G>A	c.(5770-5772)Gca>Aca	p.A1924T	PTPN13_ENST00000411767.2_Missense_Mutation_p.A1919T|PTPN13_ENST00000427191.2_Missense_Mutation_p.A1900T|PTPN13_ENST00000511467.1_Missense_Mutation_p.A1924T|PTPN13_ENST00000316707.6_Missense_Mutation_p.A1728T	NM_080683.2|NM_080685.2	NP_542414.1|NP_542416.1	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase)	1919	PDZ 5.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein tyrosine phosphatase activity			NS(4)|breast(3)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(23)|lung(24)|ovary(4)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(2)	93		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AAGGTCCGTCGCAGCCATTGA	0.383000													6	31					0	0	1	0	0
KRT28	162605	broad.mit.edu	37	17	38950240	38950240	+	Missense_Mutation	SNP	G	G	A	rs150448547		TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr17:38950240G>A	ENST00000306658.7	-	6	1102	c.1037C>T	c.(1036-1038)gCg>gTg	p.A346V		NM_181535.3	NP_853513.2	Q7Z3Y7	K1C28_HUMAN	keratin 28	346	Coil 2.|Rod.					cytoplasm|intermediate filament	structural molecule activity			NS(1)|breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	30		Breast(137;0.000301)				CTGGATCTGCGCCAGCTGCGT	0.577000													15	275					0	0	1	0	0
CEL	1056	broad.mit.edu	37	9	135946995	135946995	+	Silent	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr9:135946995C>T	ENST00000372080.4	+	11	2131	c.2115C>T	c.(2113-2115)ccC>ccT	p.P705P	CEL_ENST00000351304.7_Silent_p.P636P	NM_001807.3	NP_001798.2	P19835	CEL_HUMAN	carboxyl ester lipase	702	17 X 11 AA tandem repeats, glycodomain, O-linked (mucin type).				cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			NS(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(9)|pancreas(2)|skin(1)	20				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		GGGCCCCCCCCGTGACCCCCA	0.816000													3	8					0	0	1	0	0
MUC7	4589	broad.mit.edu	37	4	71347240	71347240	+	Missense_Mutation	SNP	T	T	C	rs145745951	byFrequency	TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr4:71347240T>C	ENST00000413702.1	+	4	1067	c.779T>C	c.(778-780)gTc>gCc	p.V260A	MUC7_ENST00000304887.5_Missense_Mutation_p.V260A|MUC7_ENST00000456088.1_Missense_Mutation_p.V260A	NM_001145006.1	NP_001138478.1	Q8TAX7	MUC7_HUMAN	mucin 7, secreted	260	Thr-rich.					extracellular region	protein binding	p.V260A(1)		central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(2)|lung(23)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	42			Lung(101;0.211)			ACCACAGCTGTCCCACCCACA	0.587000													11	277					0	0	1	0	0
ZFP64	55734	broad.mit.edu	37	20	50701174	50701174	+	Silent	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr20:50701174G>A	ENST00000361387.2	-	9	1920	c.1860C>T	c.(1858-1860)agC>agT	p.S620S	ZFP64_ENST00000371518.2_Intron|ZFP64_ENST00000371523.4_Silent_p.S401S	NM_199427.2	NP_955459.2	Q9NPA5	ZF64A_HUMAN	ZFP64 zinc finger protein	465					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|endometrium(5)|large_intestine(8)|lung(11)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	33						CCGAGGCACCGCTTTCCGGTG	0.597000													24	43					0	0	1	0	0
IRF7	3665	broad.mit.edu	37	11	615146	615146	+	Missense_Mutation	SNP	T	T	G			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr11:615146T>G	ENST00000397566.1	-	1	582	c.173A>C	c.(172-174)aAg>aCg	p.K58T	IRF7_ENST00000330243.5_Missense_Mutation_p.K58T|IRF7_ENST00000397562.3_5'UTR|IRF7_ENST00000348655.6_Missense_Mutation_p.K45T|IRF7_ENST00000525445.1_5'UTR|IRF7_ENST00000397570.1_Missense_Mutation_p.K45T|IRF7_ENST00000397574.2_Missense_Mutation_p.K45T	NM_004031.2	NP_004022.2	Q92985	IRF7_HUMAN	interferon regulatory factor 7	45					interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of interferon-alpha production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	8		all_cancers(49;1.69e-08)|all_epithelial(84;1.65e-05)|Breast(177;0.000231)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;7.68e-28)|Epithelial(43;7.44e-27)|OV - Ovarian serous cystadenocarcinoma(40;3.53e-21)|BRCA - Breast invasive adenocarcinoma(625;6.96e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CGCGAAGTGCTTCCAGGGCAC	0.697000													6	14					0	0	1	0	0
CIC	23152	broad.mit.edu	37	19	42799050	42799050	+	Missense_Mutation	SNP	C	C	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr19:42799050C>A	ENST00000572681.2	+	21	7320	c.7252C>A	c.(7252-7254)Cgt>Agt	p.R2418S	CIC_ENST00000160740.3_Missense_Mutation_p.R1510S|CIC_ENST00000575354.2_Missense_Mutation_p.R1512S			Q96RK0	CIC_HUMAN	capicua transcriptional repressor	1512					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			autonomic_ganglia(1)|breast(5)|central_nervous_system(32)|endometrium(10)|kidney(2)|large_intestine(7)|lung(9)|ovary(7)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	82		Prostate(69;0.00682)				GTTGAAGATCCGTGAGGTGCG	0.632000			"""Mis, F, S"""		oligodendroglioma								32	42					2.75727e-19	3.06364e-19	1	1	0
ANKRD17	26057	broad.mit.edu	37	4	73957008	73957008	+	Nonsense_Mutation	SNP	C	C	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr4:73957008C>A	ENST00000358602.4	-	29	6453	c.6337G>T	c.(6337-6339)Gga>Tga	p.G2113*	ANKRD17_ENST00000509867.2_Nonsense_Mutation_p.G2000*|ANKRD17_ENST00000330838.6_Nonsense_Mutation_p.G1862*	NM_032217.3	NP_115593.3	O75179	ANR17_HUMAN	ankyrin repeat domain 17	2113					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			NS(3)|breast(2)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(39)|ovary(6)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)	96	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GAAACAGATCCCGGAGGTTGT	0.483000													15	182					3.27435e-08	3.48335e-08	1	1	0
TBC1D3P2	440452	broad.mit.edu	37	17	60342504	60342504	+	RNA	SNP	T	T	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr17:60342504T>C	ENST00000581291.1	-	0	1649																				breast(2)|kidney(1)|lung(2)	5						CAGTGCTGGGTGCACTGCAGG	0.637000													6	141					0	0	1	0	0
ARFIP2	23647	broad.mit.edu	37	11	6501609	6501609	+	Missense_Mutation	SNP	G	G	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr11:6501609G>T	ENST00000254584.2	-	2	126	c.43C>A	c.(43-45)Cct>Act	p.P15T	ARFIP2_ENST00000423813.2_Intron|ARFIP2_ENST00000525235.1_Missense_Mutation_p.P15T|ARFIP2_ENST00000445086.2_Intron|ARFIP2_ENST00000396777.3_Missense_Mutation_p.P15T	NM_012402.3	NP_036534.1	P53365	ARFP2_HUMAN	ADP-ribosylation factor interacting protein 2	15					actin cytoskeleton organization|cellular component movement|lamellipodium assembly|ruffle organization|small GTPase mediated signal transduction	cell cortex|plasma membrane|ruffle	GTP binding|GTP-dependent protein binding|Rac GTPase binding			endometrium(2)|large_intestine(4)|liver(1)|lung(4)|pancreas(1)|prostate(1)|skin(2)	15		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;3.41e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCGTGGATAGGGATCTCCATT	0.517000													13	27					0.000308642	0.000321502	1	1	0
TSSC2	650368	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr11:3427845C>T	ENST00000529482.1	+	0	962																											CTTCAAGTGGCAGGAGCAGAA	0.587000													8	75					0	0	1	0	0
LOC101927079	101927079	broad.mit.edu	37	15	22332492	22332492	+	RNA	SNP	A	A	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr15:22332492A>C	ENST00000558896.1	+	0	299																											TATTTCTCTTATTACTATTTT	0.383000													5	210					0	0	1	0	0
IQGAP2	10788	broad.mit.edu	37	5	75967776	75967776	+	Silent	SNP	G	G	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr5:75967776G>T	ENST00000274364.6	+	24	3333	c.3036G>T	c.(3034-3036)gtG>gtT	p.V1012V	IQGAP2_ENST00000502745.1_Silent_p.V508V|IQGAP2_ENST00000379730.3_Silent_p.V514V|IQGAP2_ENST00000396234.3_Silent_p.V508V	NM_006633.2	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	1012	Ras-GAP.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(23)|ovary(6)|prostate(1)|skin(3)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	68		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AGGCTTGGGTGAACCAACTAG	0.433000													16	14					6.94344e-10	7.54722e-10	1	1	0
ABCF3	55324	broad.mit.edu	37	3	183908941	183908941	+	Silent	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr3:183908941G>A	ENST00000429586.2	+	16	1652	c.1467G>A	c.(1465-1467)ccG>ccA	p.P489P	ABCF3_ENST00000292808.5_Silent_p.P483P|EIF2B5_ENST00000444495.1_Intron	NM_018358.2	NP_060828.2	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20), member 3	489							ATP binding|ATPase activity			breast(2)|cervix(1)|endometrium(2)|large_intestine(5)|lung(20)|ovary(3)|prostate(5)|upper_aerodigestive_tract(1)	39	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGTTCTCGCCGCCAATTCTGC	0.567000													5	180					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr2:209113112C>T	ENST00000415913.1	-	4	776	c.395G>A	c.(394-396)cGt>cAt	p.R132H	IDH1_ENST00000345146.2_Missense_Mutation_p.R132H|IDH1_ENST00000446179.1_Missense_Mutation_p.R132H	NM_001282387.1	NP_001269316.1	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132			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).|R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|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 -> 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).		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(2774)|p.R132L(59)|p.R132V(1)|p.G131_R132>VL(1)		NS(1)|autonomic_ganglia(2)|biliary_tract(24)|bone(237)|central_nervous_system(3764)|endometrium(3)|haematopoietic_and_lymphoid_tissue(794)|kidney(2)|large_intestine(7)|lung(7)|prostate(6)|skin(5)|soft_tissue(12)|thyroid(22)|urinary_tract(1)	4887				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma								37	52					0	0	1	0	0
ABLIM2	84448	broad.mit.edu	37	4	8055951	8055951	+	Silent	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr4:8055951C>T	ENST00000318888.4	-	8	928	c.57G>A	c.(55-57)gcG>gcA	p.A19A	ABLIM2_ENST00000361581.5_Silent_p.A262A|ABLIM2_ENST00000341937.5_Silent_p.A262A|ABLIM2_ENST00000545242.1_Silent_p.A262A|ABLIM2_ENST00000296372.8_Silent_p.A262A|ABLIM2_ENST00000361737.5_Silent_p.A262A|ABLIM2_ENST00000546334.1_Silent_p.A262A|ABLIM2_ENST00000447017.2_Silent_p.A262A|ABLIM2_ENST00000407564.3_Silent_p.A262A|ABLIM2_ENST00000428004.2_Silent_p.A262A|ABLIM2_ENST00000514025.1_Silent_p.A19A|ABLIM2_ENST00000505872.1_Silent_p.A262A			Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	262					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			NS(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(6)|pancreas(3)|prostate(2)|urinary_tract(1)	25						CTTGTCGACACGCCGGATGCC	0.502000													15	46					0	0	1	0	0
DSG4	147409	broad.mit.edu	37	18	28992950	28992950	+	Missense_Mutation	SNP	A	A	G			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr18:28992950A>G	ENST00000359747.4	+	15	2601	c.2572A>G	c.(2572-2574)Aaa>Gaa	p.K858E	RP11-534N16.1_ENST00000581856.1_RNA|DSG4_ENST00000308128.4_Missense_Mutation_p.K839E|RP11-534N16.1_ENST00000578477.1_RNA	NM_001134453.1	NP_001127925.1	Q86SJ6	DSG4_HUMAN	desmoglein 4	839					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			NS(1)|breast(1)|central_nervous_system(6)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(11)|liver(2)|lung(35)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TTTAGATCCAAAATTTAGGAC	0.448000													8	206					0	0	1	0	0
BMS1P20	96610	broad.mit.edu	37	22	22663087	22663087	+	RNA	SNP	A	A	G	rs1054158		TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr22:22663087A>G	ENST00000426066.1	+	0	526					NR_027293.1																						GCTGCCACATAAGTTGTCCTT	0.303000													4	42					0	0	1	0	0
IRF8	3394	broad.mit.edu	37	16	85954816	85954816	+	Silent	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr16:85954816C>T	ENST00000268638.5	+	9	1631	c.1209C>T	c.(1207-1209)ttC>ttT	p.F403F	IRF8_ENST00000562492.1_Silent_p.F199F	NM_002163.2	NP_002154.1	Q02556	IRF8_HUMAN	interferon regulatory factor 8	403					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(2)|lung(8)|ovary(2)|prostate(1)|urinary_tract(1)	24		Prostate(104;0.0771)				ACCAGGTCTTCCGGATGTTTC	0.587000													6	113					0	0	1	0	0
OR4C16	219428	broad.mit.edu	37	11	55339695	55339695	+	Missense_Mutation	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr11:55339695G>A	ENST00000314634.3	+	1	92	c.92G>A	c.(91-93)cGt>cAt	p.R31H		NM_001004701.2	NP_001004701.2	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C, member 16 (gene/pseudogene)	31					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.R31H(2)|p.R31L(1)		central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(1)|lung(28)|ovary(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	41		all_epithelial(135;0.0748)				ATTTTTTTGCGTCTCTACTTG	0.368000													59	110					0	0	1	0	0
OCLN	100506658	broad.mit.edu	37	5	68849441	68849441	+	Missense_Mutation	SNP	G	G	C	rs140334684	by1000genomes	TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr5:68849441G>C	ENST00000355237.2	+	9	1948	c.1512G>C	c.(1510-1512)aaG>aaC	p.K504N	OCLN_ENST00000380766.2_Missense_Mutation_p.K450N|OCLN_ENST00000396442.2_Missense_Mutation_p.K504N|OCLN_ENST00000542132.1_Missense_Mutation_p.K182N|OCLN_ENST00000514370.1_3'UTR|OCLN_ENST00000538151.1_Missense_Mutation_p.K253N	NM_002538.3	NP_002529.1	Q16625	OCLN_HUMAN	occludin	504					cellular component disassembly involved in apoptosis|protein complex assembly	integral to membrane|tight junction	protein binding|structural molecule activity			endometrium(2)|large_intestine(1)|liver(1)|prostate(1)|skin(1)	6		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		AGCAGTTAAAGAGCAAATTGT	0.348000													5	72					0	0	1	0	0
GPR125	166647	broad.mit.edu	37	4	22390725	22390725	+	Silent	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr4:22390725C>T	ENST00000334304.5	-	18	2978	c.2709G>A	c.(2707-2709)cgG>cgA	p.R903R	GPR125_ENST00000282943.5_5'UTR	NM_145290.3	NP_660333.2	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125	903					neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity	p.R903R(1)		breast(1)|endometrium(6)|kidney(2)|large_intestine(10)|lung(33)|pancreas(1)|skin(1)|stomach(1)|urinary_tract(1)	56		Breast(46;0.198)				GTGCGTTTGGCCGACTGCCGT	0.418000													5	384					0	0	1	0	0
FRG1B	284802	broad.mit.edu	37	20	29628243	29628243	+	Missense_Mutation	SNP	T	T	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr20:29628243T>C	ENST00000278882.3	+	6	625	c.245T>C	c.(244-246)tTg>tCg	p.L82S	FRG1B_ENST00000439954.2_Missense_Mutation_p.L87S|FRG1B_ENST00000358464.4_Missense_Mutation_p.L82S														p.L82S(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						ATGGCTTTGTTGGCCTCAAAT	0.363000													5	315					0	0	1	0	0
ANKRD20A8P	729171	broad.mit.edu	37	2	95522786	95522786	+	RNA	SNP	T	T	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr2:95522786T>C	ENST00000432432.2	-	0	241					NR_040113.1													p.K44K(1)									CGGCGTCGCCTTTGACAGCTG	0.687000													3	81					0	0	1	0	0
STPG2	285555	broad.mit.edu	37	4	98902451	98902451	+	Missense_Mutation	SNP	A	A	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr4:98902451A>T	ENST00000295268.3	-	6	720	c.631T>A	c.(631-633)Tca>Aca	p.S211T		NM_174952.2	NP_777612.1			sperm-tail PG-rich repeat containing 2																		GGGGTGATTGATTTCATAGGT	0.363000													34	88					0	0	1	0	0
SNAP91	9892	broad.mit.edu	37	6	84366496	84366496	+	Missense_Mutation	SNP	T	T	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr6:84366496T>C	ENST00000428679.2	-	7	1228	c.635A>G	c.(634-636)aAt>aGt	p.N212S	SNAP91_ENST00000369694.2_Missense_Mutation_p.N212S|SNAP91_ENST00000437520.1_Missense_Mutation_p.N212S|SNAP91_ENST00000520302.1_Missense_Mutation_p.N212S|SNAP91_ENST00000439399.2_Missense_Mutation_p.N212S|SNAP91_ENST00000521743.1_Missense_Mutation_p.N212S|SNAP91_ENST00000195649.6_Missense_Mutation_p.N212S|SNAP91_ENST00000520213.1_Missense_Mutation_p.N212S|SNAP91_ENST00000521485.1_Missense_Mutation_p.N212S			O60641	AP180_HUMAN	synaptosomal-associated protein, 91kDa	212					clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			breast(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(22)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	37		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)		AACACCATCATTGTAGCAAGC	0.383000													3	22					0	0	1	0	0
CCDC6	8030	broad.mit.edu	37	10	61564190	61564190	+	Missense_Mutation	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr10:61564190G>A	ENST00000263102.6	-	7	1324	c.1093C>T	c.(1093-1095)Cct>Tct	p.P365S		NM_005436.4	NP_005427.2	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	365						cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton		CCDC6/RET(4)	breast(3)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(6)|ovary(3)|stomach(1)	18				Kidney(211;0.0597)		GGTGATATAGGCCTGCTTGAA	0.458000			T	RET	NSCLC								32	68					0	0	1	0	0
PARP16	54956	broad.mit.edu	37	15	65563325	65563325	+	Missense_Mutation	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr15:65563325C>T	ENST00000261888.6	-	2	705	c.260G>A	c.(259-261)aGc>aAc	p.S87N	PARP16_ENST00000558873.1_5'UTR|PARP16_ENST00000444347.2_Intron	NM_017851.4	NP_060321.3	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	87	PARP catalytic.					integral to membrane	NAD+ ADP-ribosyltransferase activity			kidney(1)|large_intestine(1)|lung(5)|prostate(1)|skin(1)	9						TAAAATCCAGCTCACCAGGTC	0.532000													5	445					0	0	1	0	0
ABCC3	8714	broad.mit.edu	37	17	48755185	48755185	+	Silent	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr17:48755185G>A	ENST00000285238.8	+	24	3539	c.3459G>A	c.(3457-3459)gaG>gaA	p.E1153E		NM_003786.3	NP_003777.2	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	1153	ABC transmembrane type-1 2.				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(11)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	ACTTTTCGGAGACAGTGACTG	0.547000													6	315					0	0	1	0	0
STAG1	10274	broad.mit.edu	37	3	136240172	136240172	+	Nonsense_Mutation	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr3:136240172G>A	ENST00000383202.2	-	7	815	c.559C>T	c.(559-561)Cga>Tga	p.R187*	STAG1_ENST00000236698.5_Nonsense_Mutation_p.R187*|STAG1_ENST00000480733.1_Nonsense_Mutation_p.R187*|STAG1_ENST00000434713.2_5'UTR	NM_005862.2	NP_005853.2	Q8WVM7	STAG1_HUMAN	stromal antigen 1	187					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding	p.R187*(1)		NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(16)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58						TGACACTGTCGAATCAGGACT	0.398000													4	196					0	0	1	0	0
ITGB4	3691	broad.mit.edu	37	17	73725516	73725516	+	Splice_Site	SNP	C	C	T			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr17:73725516C>T	ENST00000200181.3	+	7	924	c.737C>T	c.(736-738)aCg>aTg	p.T246M	ITGB4_ENST00000450894.3_Splice_Site_p.T246M|ITGB4_ENST00000584558.1_3'UTR|ITGB4_ENST00000339591.3_Splice_Site_p.T246M|ITGB4_ENST00000579662.1_Splice_Site_p.T246M|ITGB4_ENST00000449880.2_Splice_Site_p.T246M	NM_000213.3	NP_000204.3	P16144	ITB4_HUMAN	integrin, beta 4	246	VWFA.				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(1)|lung(25)|skin(1)|urinary_tract(1)	43	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCTGTGTGCACGGTGGGCACT	0.637000													8	18					0	0	1	0	0
LYST	1130	broad.mit.edu	37	1	235929502	235929502	+	Missense_Mutation	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr1:235929502G>A	ENST00000389794.3	-	21	6172	c.5998C>T	c.(5998-6000)Ctt>Ttt	p.L2000F	LYST_ENST00000389793.2_Missense_Mutation_p.L2000F|LYST_ENST00000536965.1_3'UTR			Q99698	LYST_HUMAN	lysosomal trafficking regulator	2000					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			NS(1)|breast(13)|central_nervous_system(3)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(27)|lung(66)|ovary(7)|pancreas(1)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	162	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GGAGATCCAAGGACTTCTGCT	0.378000													111	236					0	0	1	0	0
PRG4	10216	broad.mit.edu	37	1	186276640	186276640	+	Missense_Mutation	SNP	A	A	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr1:186276640A>C	ENST00000445192.2	+	7	1834	c.1789A>C	c.(1789-1791)Acc>Ccc	p.T597P	PRG4_ENST00000367484.3_Intron|PRG4_ENST00000367483.4_Missense_Mutation_p.T556P|PRG4_ENST00000367486.3_Missense_Mutation_p.T554P|PRG4_ENST00000367485.4_Missense_Mutation_p.T504P	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	597	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity	p.T597P(1)		NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						ACCCACCACCACCAAGAAGCC	0.652000													6	81					0	0	1	0	0
DLC1	10395	broad.mit.edu	37	8	13357011	13357011	+	Silent	SNP	G	G	A			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr8:13357011G>A	ENST00000276297.4	-	2	979	c.570C>T	c.(568-570)agC>agT	p.S190S	DLC1_ENST00000316609.5_Silent_p.S190S|DLC1_ENST00000511869.1_Silent_p.S190S	NM_182643.2	NP_872584.2	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1	190					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			NS(2)|breast(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(39)|lung(32)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	110						AAAGCTCCAGGCTTTTACTTA	0.383000													7	281					0	0	1	0	0
SLC7A1	6541	broad.mit.edu	37	13	30091751	30091751	+	Missense_Mutation	SNP	T	T	C			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr13:30091751T>C	ENST00000380752.5	-	10	1855	c.1469A>G	c.(1468-1470)aAa>aGa	p.K490R	SLC7A1_ENST00000473577.1_5'UTR	NM_003045.4	NP_003036.1	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	490					cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity			endometrium(2)|kidney(2)|large_intestine(6)|lung(10)|prostate(1)|stomach(1)|urinary_tract(2)	24		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CCCAGAGATTTTGGAAGGCTC	0.473000													90	86					0	0	1	0	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803276	142803278	+	RNA	DEL	AAC	AAC	-			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr1:142803276_142803278delAAC	ENST00000423385.1	-	0	1687_1689																											ACCAAACCAAaacaacaacaaca	0.345													5	5	---	---	---	---					
MCC	4163	broad.mit.edu	37	5	112824048	112824049	+	In_Frame_Ins	INS	-	-	GCC	rs35336557		TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr5:112824048_112824049insGCC	ENST00000408903.3	-	1	478_479	c.63_64insGGC	c.(61-66)ggcagc>ggcGGCagc	p.21_22insG		NM_001085377.1	NP_001078846	P23508	CRCM_HUMAN	mutated in colorectal cancers	549					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			endometrium(4)|kidney(3)|large_intestine(15)|liver(2)|lung(8)|ovary(2)|pancreas(1)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		ctgctgccgctgccgccgccgc	0.738													14	16	---	---	---	---					
TOX4	9878	broad.mit.edu	37	14	21961060	21961062	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr14:21961060_21961062delGCT	ENST00000405508.1	+	8	1561_1563	c.1285_1287delGCT	c.(1285-1287)gctdel	p.A434del	TOX4_ENST00000262709.3_In_Frame_Del_p.A434del|TOX4_ENST00000448790.2_In_Frame_Del_p.A411del			O94842	TOX4_HUMAN	TOX high mobility group box family member 4	434	Gln/Pro-rich.|Poly-Ala.					chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding	p.A429A(1)		large_intestine(8)|lung(4)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)		GGCAGCAGCAGCTGCTGCTGCTG	0.581													7	285	---	---	---	---					
MED9	55090	broad.mit.edu	37	17	17394705	17394707	+	In_Frame_Del	DEL	CAG	CAG	-			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr17:17394705_17394707delCAG	ENST00000268711.3	+	2	393_395	c.337_339delCAG	c.(337-339)cagdel	p.Q117del		NM_018019.2	NP_060489.1	Q9NWA0	MED9_HUMAN	mediator complex subunit 9	117					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		protein binding			cervix(1)|endometrium(1)|large_intestine(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	7						GAGCCCCGAACAGCAGCAGCAGC	0.581													7	196	---	---	---	---					
CDC27	996	broad.mit.edu	37	17	45219612	45219612	+	Frame_Shift_Del	DEL	A	A	-			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr17:45219612delA	ENST00000066544.3	-	11	1454	c.1361delT	c.(1360-1362)ctafs	p.L454fs	CDC27_ENST00000531206.1_Frame_Shift_Del_p.L460fs|CDC27_ENST00000527547.1_Frame_Shift_Del_p.L454fs|CDC27_ENST00000446365.2_Frame_Shift_Del_p.L393fs	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	454					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						TGCTTTTTGTAGATTAAAGGC	0.308													9	74	---	---	---	---					
PSG7	5676	broad.mit.edu	37	19	43440068	43440069	+	RNA	DEL	AC	AC	-	rs72310923		TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr19:43440068_43440069delAC	ENST00000446844.3	-	0	154				PSG7_ENST00000406070.2_RNA			Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7 (gene/pseudogene)						female pregnancy	extracellular region							Prostate(69;0.00682)				acacacacaaacacacacacac	0.495													7	12	---	---	---	---					
ANKRD20A18P	391269	broad.mit.edu	37	21	15436915	15436915	+	RNA	DEL	G	G	-			TCGA-QH-A6CY-01A-11D-A32B-08	TCGA-QH-A6CY-10A-01D-A329-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e810c032-3bcd-4baf-9e72-58ef00fb0ac7	27e7dbae-bfb7-4634-98cd-9f4211d864d6	g.chr21:15436915delG	ENST00000428809.1	+	0	177				AP001347.6_ENST00000448463.1_RNA|AP001347.6_ENST00000432621.1_RNA																							CCCCTGGGACGGGGGCCTTGG	0.687													4	7	---	---	---	---					
