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
PDZRN3	23024	broad.mit.edu	37	3	73432662	73432662	+	Missense_Mutation	SNP	C	C	T	rs146957114		TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr3:73432662C>T	ENST00000263666.4	-	10	3169	c.3055G>A	c.(3055-3057)Gaa>Aaa	p.E1019K	PDZRN3_ENST00000462146.2_Missense_Mutation_p.E676K|PDZRN3_ENST00000535920.1_Missense_Mutation_p.E741K|PDZRN3_ENST00000466780.1_Missense_Mutation_p.E676K|PDZRN3_ENST00000479530.1_Missense_Mutation_p.E736K	NM_015009.1	NP_055824.1	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	1019							ubiquitin-protein ligase activity|zinc ion binding	p.E1019K(1)		breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(13)|lung(31)|ovary(4)|pancreas(2)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	69		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TGGCTCAGTTCGAGAATGTTC	0.498000													5	130					0	0	1	0	0
PPP1R3F	89801	broad.mit.edu	37	X	49143521	49143521	+	Missense_Mutation	SNP	C	C	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chrX:49143521C>T	ENST00000055335.6	+	4	2385	c.2369C>T	c.(2368-2370)gCg>gTg	p.A790V	PPP1R3F_ENST00000376188.1_Missense_Mutation_p.A444V|PPP1R3F_ENST00000438316.1_Missense_Mutation_p.A461V|PPP1R3F_ENST00000466508.1_Missense_Mutation_p.A444V|PPP1R3F_ENST00000495799.1_Missense_Mutation_p.A444V	NM_033215.4	NP_149992.3	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory subunit 3F	790						integral to membrane				endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|skin(4)	27	Ovarian(276;0.236)					CTGGTGCTTGCGCTGTGCCTC	0.627000													3	24					0	0	1	0	0
TCERG1	10915	broad.mit.edu	37	5	145843159	145843159	+	Missense_Mutation	SNP	C	C	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr5:145843159C>T	ENST00000296702.5	+	5	976	c.938C>T	c.(937-939)gCc>gTc	p.A313V	TCERG1_ENST00000394421.2_Missense_Mutation_p.A313V	NM_006706.3	NP_006697.2	O14776	TCRG1_HUMAN	transcription elongation regulator 1	313	Thr-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			breast(1)|central_nervous_system(3)|endometrium(5)|kidney(4)|large_intestine(18)|lung(9)|ovary(2)|prostate(3)|skin(1)	46		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTTTCAGTTGCCACGCCTACA	0.458000													4	154					0	0	1	0	0
PCDHB10	56126	broad.mit.edu	37	5	140574405	140574405	+	Silent	SNP	C	C	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr5:140574405C>T	ENST00000239446.4	+	1	2464	c.2280C>T	c.(2278-2280)ggC>ggT	p.G760G		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN		760					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGACGGGAGGCCCCGGGACCA	0.567000													13	81					0	0	1	0	0
SYT9	143425	broad.mit.edu	37	11	7334941	7334941	+	Missense_Mutation	SNP	A	A	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr11:7334941A>T	ENST00000318881.6	+	3	1050	c.813A>T	c.(811-813)aaA>aaT	p.K271N	SYT9_ENST00000396716.2_Missense_Mutation_p.K239N	NM_175733.3	NP_783860.1	Q86SS6	SYT9_HUMAN	synaptotagmin IX	271	C2 1.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			NS(1)|endometrium(2)|large_intestine(9)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	38				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GGAAAACAAAACACCAGACTA	0.423000													6	122					0	0	1	0	0
BMS1P20	96610	broad.mit.edu	37	22	22664128	22664128	+	RNA	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr22:22664128G>A	ENST00000426066.1	+	0	651					NR_027293.1																						CTTGGAAGTGGCCAAATTTGA	0.433000													3	48					0	0	1	0	0
ABCF2	10061	broad.mit.edu	37	7	150913092	150913092	+	Silent	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr7:150913092G>A	ENST00000287844.2	-	12	1471	c.1362C>T	c.(1360-1362)atC>atT	p.I454I	ABCF2_ENST00000222388.2_Silent_p.I454I	NM_007189.1	NP_009120.1	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F (GCN20), member 2	454	ABC transporter 2.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			breast(1)|central_nervous_system(1)|large_intestine(4)|lung(15)|ovary(1)|skin(2)	24			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGTGTTTTCGGATCATGCCAT	0.493000													12	96					0	0	1	0	0
CEP152	22995	broad.mit.edu	37	15	49034156	49034156	+	Missense_Mutation	SNP	T	T	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr15:49034156T>A	ENST00000380950.2	-	25	4164	c.3977A>T	c.(3976-3978)gAt>gTt	p.D1326V	CEP152_ENST00000399334.3_Missense_Mutation_p.D1270V|CEP152_ENST00000325747.5_Missense_Mutation_p.D1233V	NM_001194998.1|NM_014985.3	NP_001181927.1|NP_055800.2	O94986	CE152_HUMAN	centrosomal protein 152kDa	1270					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(16)|lung(30)|ovary(1)|prostate(2)|skin(2)	63		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTCTTTTCCATCATCCTGCAA	0.393000													4	133					0	0	1	0	0
MCC	4163	broad.mit.edu	37	5	112824054	112824054	+	Missense_Mutation	SNP	C	C	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr5:112824054C>T	ENST00000408903.3	-	1	473	c.58G>A	c.(58-60)Ggc>Agc	p.G20S		NM_001085377.1	NP_001078846.1	P23508	CRCM_HUMAN	mutated in colorectal cancers	548					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	p.G20S(1)		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)		ccgctgccgccgccgccgccg	0.756000													3	3					0	0	1	0	0
DVL2	1856	broad.mit.edu	37	17	7132319	7132319	+	Missense_Mutation	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr17:7132319G>A	ENST00000005340.5	-	9	1285	c.1003C>T	c.(1003-1005)Cgg>Tgg	p.R335W	DVL2_ENST00000575458.1_Missense_Mutation_p.R329W	NM_004422.2	NP_004413.1	O14641	DVL2_HUMAN	dishevelled segment polarity protein 2	335	PDZ.				canonical Wnt receptor signaling pathway involved in regulation of cell proliferation|intracellular signal transduction|neural tube closure|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|segment specification|transcription from RNA polymerase II promoter	cytosol|nucleus|plasma membrane	frizzled binding|identical protein binding|signal transducer activity			breast(2)|endometrium(3)|kidney(1)|large_intestine(11)|lung(7)|skin(1)	25						CTCAGCACCCGCACAGCGTCA	0.532000													3	48					0	0	1	0	0
ZNF426	79088	broad.mit.edu	37	19	9645923	9645923	+	Missense_Mutation	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr19:9645923G>A	ENST00000535489.1	-	2	394	c.58C>T	c.(58-60)Cat>Tat	p.H20Y	ZNF426_ENST00000589289.1_Missense_Mutation_p.H20Y|ZNF426_ENST00000593003.1_Intron|ZNF426_ENST00000253115.2_Missense_Mutation_p.H20Y			Q9BUY5	ZN426_HUMAN	zinc finger protein 426	20					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(3)|ovary(1)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	20						TTTTCTTCATGAAGGCAAACT	0.443000													17	199					0	0	1	0	0
PLCH1	23007	broad.mit.edu	37	3	155241774	155241774	+	Missense_Mutation	SNP	T	T	C			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr3:155241774T>C	ENST00000460012.1	-	11	1649	c.1292A>G	c.(1291-1293)cAc>cGc	p.H431R	PLCH1_ENST00000340059.7_Missense_Mutation_p.H449R|PLCH1_ENST00000494598.1_Missense_Mutation_p.H449R|PLCH1_ENST00000447496.2_Missense_Mutation_p.H449R|PLCH1_ENST00000414191.1_Missense_Mutation_p.H431R|PLCH1_ENST00000334686.6_Missense_Mutation_p.H431R			Q4KWH8	PLCH1_HUMAN	phospholipase C, eta 1	449	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			NS(3)|breast(3)|endometrium(9)|kidney(4)|large_intestine(20)|lung(45)|ovary(2)|prostate(5)|skin(8)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(4)	107			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATCCCCAAGGTGATAAGGCAA	0.408000													46	75					0	0	1	0	0
FBXO33	254170	broad.mit.edu	37	14	39871700	39871700	+	Missense_Mutation	SNP	A	A	C			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr14:39871700A>C	ENST00000298097.7	-	2	952	c.615T>G	c.(613-615)ttT>ttG	p.F205L	FBXO33_ENST00000554190.1_Intron	NM_203301.3	NP_976046.1	Q7Z6M2	FBX33_HUMAN	F-box protein 33	205										endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(4)|urinary_tract(1)	9	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		CAAAAAGACTAAACTTCTGAA	0.299000													9	19					0	0	1	0	0
CAPN9	10753	broad.mit.edu	37	1	230930958	230930958	+	Silent	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr1:230930958G>A	ENST00000354537.1	+	17	1924	c.1842G>A	c.(1840-1842)gcG>gcA	p.A614A	CAPN9_ENST00000271971.2_Silent_p.A640A|CAPN9_ENST00000366666.2_Silent_p.A577A|CAPN9_ENST00000480004.1_3'UTR|RP11-99J16__A.2_ENST00000412344.1_RNA	NM_016452.1	NP_057536.1	O14815	CAN9_HUMAN	calpain 9	640	Domain IV.|EF-hand 3.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			autonomic_ganglia(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(12)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	25	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				TCAGGTATGCGGATGAGGAGC	0.612000													3	22					0	0	1	0	0
ARMCX3	51566	broad.mit.edu	37	X	100880328	100880328	+	Missense_Mutation	SNP	C	C	G			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chrX:100880328C>G	ENST00000341189.4	+	5	1225	c.359C>G	c.(358-360)cCt>cGt	p.P120R	ARMCX3_ENST00000537169.1_Missense_Mutation_p.P120R|ARMCX3_ENST00000471229.2_Missense_Mutation_p.P120R	NM_016607.3	NP_057691.1	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	120						integral to membrane	binding			endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(2)	11						GTTTTGTCCCCTCAAGAGCTA	0.512000													14	81					0	0	1	0	0
AWAT1	158833	broad.mit.edu	37	X	69458182	69458182	+	Missense_Mutation	SNP	C	C	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chrX:69458182C>A	ENST00000374521.3	+	5	622	c.581C>A	c.(580-582)aCc>aAc	p.T194N		NM_001013579.2	NP_001013597.1	Q58HT5	AWAT1_HUMAN	acyl-CoA wax alcohol acyltransferase 1	194					lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	long-chain-alcohol O-fatty-acyltransferase activity			breast(2)|central_nervous_system(1)|large_intestine(4)|lung(3)|ovary(4)|skin(1)	15						AACACCACCACCCTCATCCTC	0.602000													8	16					0.000157383	0.00016281	1	1	0
AGER	177	broad.mit.edu	37	6	32150435	32150435	+	Missense_Mutation	SNP	T	T	C			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr6:32150435T>C	ENST00000375065.5	-	4	359	c.350A>G	c.(349-351)cAg>cGg	p.Q117R	AGER_ENST00000375067.3_Silent_p.P230P|AGER_ENST00000375076.4_Silent_p.P244P|AGER_ENST00000375069.3_Silent_p.P143P|RNF5_ENST00000427134.2_Intron|AGER_ENST00000375055.2_Silent_p.P244P|AGER_ENST00000375070.3_Silent_p.P275P|AGER_ENST00000438221.2_Silent_p.P260P			Q15109	RAGE_HUMAN	advanced glycosylation end product-specific receptor	0					cell surface receptor linked signaling pathway|inflammatory response|innate immune response|neuron projection development|positive regulation of NF-kappaB transcription factor activity	integral to plasma membrane	S100 alpha binding|transmembrane receptor activity			breast(1)|endometrium(1)|lung(5)|pancreas(2)	9						CTCCACCTTCTGGCTCCACCA	0.562000													3	46					0	0	1	0	0
JUN	3725	broad.mit.edu	37	1	59248091	59248091	+	Nonsense_Mutation	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr1:59248091G>A	ENST00000371222.2	-	1	1694	c.652C>T	c.(652-654)Cag>Tag	p.Q218*		NM_002228.3	NP_002219.1	P05412	JUN_HUMAN	jun proto-oncogene	218					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding			breast(2)|kidney(2)|lung(5)|skin(1)	10	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	CGCGGGTGCTGCACGGGCATC	0.736000			A		sarcoma								4	16					0	0	1	0	0
CSMD3	114788	broad.mit.edu	37	8	113237069	113237069	+	Silent	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr8:113237069G>A	ENST00000297405.5	-	71	11299	c.11055C>T	c.(11053-11055)aaC>aaT	p.N3685N	CSMD3_ENST00000455883.2_Silent_p.N3516N|CSMD3_ENST00000352409.3_Silent_p.N3615N|CSMD3_ENST00000343508.3_Silent_p.N3645N	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	3685						integral to membrane|plasma membrane		p.N3685K(1)|p.N3645K(1)		breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						CTGACTTTGCGTTGGTGTCAT	0.438000										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			50	114					0	0	1	0	0
PHACTR1	221692	broad.mit.edu	37	6	13185173	13185173	+	Silent	SNP	C	C	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr6:13185173C>A	ENST00000379345.2	+	5	613	c.372C>A	c.(370-372)ccC>ccA	p.P124P	PHACTR1_ENST00000379350.1_Intron|PHACTR1_ENST00000332995.7_Intron|PHACTR1_ENST00000457702.2_Intron			Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	64						cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity			breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	26	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			AGCAGCTGCCCCTTCTCAAGC	0.582000													13	44					4.7546e-09	5.09422e-09	1	1	0
BRDT	676	broad.mit.edu	37	1	92430246	92430246	+	Silent	SNP	T	T	C			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr1:92430246T>C	ENST00000370389.2	+	3	960	c.36T>C	c.(34-36)aaT>aaC	p.N12N	BRDT_ENST00000399546.2_Silent_p.N85N|BRDT_ENST00000394530.3_Intron|BRDT_ENST00000402388.1_Silent_p.N85N|BRDT_ENST00000362005.3_Silent_p.N85N	NM_001242810.1	NP_001229739.1	Q58F21	BRDT_HUMAN	bromodomain, testis-specific	85					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|lung(24)|ovary(1)|prostate(4)|skin(2)|stomach(2)|urinary_tract(2)	56		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		GCTTGGAGAATAAATATTATG	0.274000													3	62					0	0	1	0	0
FAM21B	55747	broad.mit.edu	37	10	47929869	47929869	+	Missense_Mutation	SNP	C	C	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr10:47929869C>T	ENST00000358474.5	+	19	1850	c.1850C>T	c.(1849-1851)cCt>cTt	p.P617L		NM_018232.1	NP_060702.1	Q5SNT6	FA21B_HUMAN	family with sequence similarity 21, member B	617					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	10						TTTGGCTCTCCTCCCACATCT	0.453000													3	69					0	0	1	0	0
CD3E	916	broad.mit.edu	37	11	118175676	118175676	+	Silent	SNP	G	G	A			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr11:118175676G>A	ENST00000361763.4	+	2	300	c.9G>A	c.(7-9)tcG>tcA	p.S3S	CD3E_ENST00000528600.1_Silent_p.S3S	NM_000733.3	NP_000724.1	P07766	CD3E_HUMAN	CD3e molecule, epsilon (CD3-TCR complex)	3					G-protein coupled receptor protein signaling pathway|signal complex assembly|T cell costimulation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	external side of plasma membrane|integral to plasma membrane	protein heterodimerization activity|protein kinase binding|receptor signaling complex scaffold activity|receptor signaling protein activity|SH3 domain binding|T cell receptor binding|transmembrane receptor activity			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|ovary(2)|stomach(1)	8	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.09e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0251)	Muromonab(DB00075)	AGATGCAGTCGGGCACTCACT	0.488000													4	120					0	0	1	0	0
PDGFRA	5156	broad.mit.edu	37	4	55133522	55133522	+	Missense_Mutation	SNP	A	A	G			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr4:55133522A>G	ENST00000257290.5	+	6	1157	c.826A>G	c.(826-828)Acg>Gcg	p.T276A	FIP1L1_ENST00000507166.1_Intron	NM_006206.4	NP_006197.1	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor, alpha polypeptide	276	Ig-like C2-type 3.				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			NS(1)|autonomic_ganglia(1)|bone(1)|breast(4)|central_nervous_system(17)|cervix(1)|endometrium(4)|eye(1)|gastrointestinal_tract_(site_indeterminate)(1)|haematopoietic_and_lymphoid_tissue(22)|kidney(6)|large_intestine(26)|liver(4)|lung(48)|ovary(4)|prostate(6)|skin(11)|small_intestine(49)|soft_tissue(727)|stomach(32)|urinary_tract(1)	967	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GTACACTTTGACGGTCCCCGA	0.463000			"""Mis, O, T"""	FIP1L1	"""GIST, idiopathic hypereosinophilic syndrome, paediatric GBM"""				Gastrointestinal Stromal Tumors, Sporadic Multiple Primary;Familial Intestinal Neurofibromatosis	TSP Lung(21;0.16)			3	57					0	0	1	0	0
SSH3	54961	broad.mit.edu	37	11	67079325	67079325	+	Silent	SNP	C	C	T			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr11:67079325C>T	ENST00000308127.4	+	14	2125	c.1947C>T	c.(1945-1947)agC>agT	p.S649S	SSH3_ENST00000376757.5_3'UTR|SSH3_ENST00000308298.7_Silent_p.S384S	NM_017857.3	NP_060327.3	Q8TE77	SSH3_HUMAN	slingshot protein phosphatase 3	649					regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.S649S(1)		NS(1)|breast(2)|cervix(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	19			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GACAGGCCAGCGTGCATGACA	0.642000													12	19					0	0	1	0	0
RP5-884C9.2	0	broad.mit.edu	37	1	38562824	38562825	+	RNA	DEL	AG	AG	-			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr1:38562824_38562825delAG	ENST00000432922.1	+	0	301																											ccacagaaacagagagagagag	0.500													2	4	---	---	---	---					
RANBP2	5903	broad.mit.edu	37	2	109382805	109382805	+	Frame_Shift_Del	DEL	T	T	-			TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr2:109382805delT	ENST00000283195.6	+	20	5936	c.5810delT	c.(5809-5811)atfs	p.I1937fs		NM_006267.4	NP_006258.3	P49792	RBP2_HUMAN	RAN binding protein 2	1937					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(34)	NS(1)|biliary_tract(1)|breast(3)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(21)|large_intestine(19)|lung(51)|pancreas(1)|prostate(8)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	129						CGTGGTGTGATTTTTGGCCAA	0.413													7	493	---	---	---	---					
RP11-252A24.2	0	broad.mit.edu	37	16	74378976	74378976	+	RNA	DEL	T	T	-	rs35591542		TCGA-RW-A7CZ-01A-11D-A35D-08	TCGA-RW-A7CZ-10B-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	48811849-d51d-40bb-b92c-4c8559dd3169	4d8e125a-da32-4482-accf-2dadae1a32f4	g.chr16:74378976delT	ENST00000429810.2	-	0	1086																											ACCTCTTGAAttttttttttt	0.418													2	4	---	---	---	---