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
EDAR	10913	broad.mit.edu	37	2	109545753	109545753	+	Missense_Mutation	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr2:109545753A>G	ENST00000409271.1	-	5	700	c.257T>C	c.(256-258)aTa>aCa	p.I86T	EDAR_ENST00000376651.1_Missense_Mutation_p.I86T|EDAR_ENST00000258443.2_Missense_Mutation_p.I86T			Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor	86					apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(3)|lung(6)|prostate(1)|skin(1)	16						ACGCCTGCATATCTGGTAGCC	0.607000													3	31					0	0	1	0	0
PRG4	10216	broad.mit.edu	37	1	186276565	186276565	+	Missense_Mutation	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr1:186276565A>G	ENST00000445192.2	+	7	1759	c.1714A>G	c.(1714-1716)Acc>Gcc	p.T572A	PRG4_ENST00000367483.4_Missense_Mutation_p.T531A|PRG4_ENST00000367486.3_Missense_Mutation_p.T529A|PRG4_ENST00000367485.4_Missense_Mutation_p.T479A|PRG4_ENST00000367484.3_Intron	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	572	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.T572A(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						TGCACCCACCACCCCCAAGAA	0.642000													3	41					0	0	1	0	0
ZNF733P	0	broad.mit.edu	37	7	62752443	62752443	+	RNA	SNP	G	G	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr7:62752443G>C	ENST00000331425.6	-	0	992					NR_003952.1																						CTTATGTCTAGTAAGGTTTGA	0.438000													3	14					0	0	1	0	0
MYO5A	4644	broad.mit.edu	37	15	52646099	52646099	+	Missense_Mutation	SNP	T	T	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr15:52646099T>G	ENST00000399231.3	-	26	3779	c.3536A>C	c.(3535-3537)aAg>aCg	p.K1179T	MYO5A_ENST00000356338.6_Missense_Mutation_p.K1179T|MYO5A_ENST00000399233.2_Missense_Mutation_p.K1179T|MYO5A_ENST00000358212.6_Missense_Mutation_p.K1179T|MYO5A_ENST00000553916.1_Missense_Mutation_p.K1179T	NM_000259.3	NP_000250.3	Q9Y4I1	MYO5A_HUMAN	myosin VA (heavy chain 12, myoxin)	1179					actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(7)|large_intestine(12)|lung(19)|ovary(3)|skin(3)|stomach(1)	57				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CTGCTCCTCCTTGCGGTCCAG	0.562000													9	75					0	0	1	0	0
SVOP	55530	broad.mit.edu	37	12	109332604	109332604	+	Splice_Site	SNP	T	T	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr12:109332604T>C	ENST00000299134.5	-	7	699	c.701_splice	c.e7+1	p.R234_splice		NM_018711.2	NP_061181.1	Q8N4V2	SVOP_HUMAN	SV2 related protein homolog (rat)	0						cell junction|integral to membrane|synaptic vesicle membrane	ion transmembrane transporter activity			breast(2)|lung(4)	6						GGCACTGACCTGTCTGGAGAT	0.542000													5	194					0	0	1	0	0
ARNT	0	broad.mit.edu	37	1	150812108	150812108	+	Missense_Mutation	SNP	G	G	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr1:150812108G>A	ENST00000358595.5	-	6	495	c.295C>T	c.(295-297)Cgg>Tgg	p.R99W	ARNT_ENST00000354396.2_Missense_Mutation_p.R99W|ARNT_ENST00000515192.1_Missense_Mutation_p.R90W|ARNT_ENST00000505755.1_Missense_Mutation_p.R84W	NM_001197325.1|NM_001668.3|NM_178427.2	NP_001184254.1|NP_001659.1|NP_848514.1	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	99	Poly-Arg.				positive regulation of hormone biosynthetic process|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hypoxia		aryl hydrocarbon receptor binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(11)|prostate(2)|skin(4)|stomach(1)	34	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.02)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGTCGCCGCCGTTCAATTTCA	0.493000			T	ETV6	AML								3	10					0	0	1	0	0
FN1	2335	broad.mit.edu	37	2	216273109	216273109	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr2:216273109C>T	ENST00000354785.4	-	16	2709	c.2340G>A	c.(2338-2340)ctG>ctA	p.L780L	FN1_ENST00000443816.1_Silent_p.L780L|FN1_ENST00000432072.2_Silent_p.L780L|FN1_ENST00000323926.6_Silent_p.L780L|FN1_ENST00000421182.1_Silent_p.L780L|FN1_ENST00000359671.1_Silent_p.L780L|FN1_ENST00000357867.4_Silent_p.L780L|FN1_ENST00000357009.2_Silent_p.L780L|FN1_ENST00000356005.4_Silent_p.L780L|FN1_ENST00000446046.1_Silent_p.L780L|FN1_ENST00000346544.3_Silent_p.L780L|FN1_ENST00000345488.5_Silent_p.L780L|FN1_ENST00000336916.4_Silent_p.L780L			P02751	FINC_HUMAN	fibronectin 1	780	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding		FN1/ALK(2)	NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(7)|endometrium(9)|kidney(8)|large_intestine(33)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	109		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCAGGAAGCAGGTCAGGGA	0.423000													13	36					0	0	1	0	0
MAGED1	9500	broad.mit.edu	37	X	51637809	51637809	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chrX:51637809C>T	ENST00000375695.2	+	3	285	c.132C>T	c.(130-132)tgC>tgT	p.C44C	MAGED1_ENST00000494718.1_Intron|MAGED1_ENST00000375722.1_Intron|MAGED1_ENST00000375772.3_Intron|MAGED1_ENST00000326587.7_Intron	NM_001005333.1	NP_001005333.1	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1	0					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding	p.C44C(1)		breast(1)|endometrium(4)|large_intestine(10)|lung(13)|ovary(3)|upper_aerodigestive_tract(1)	32	Ovarian(276;0.236)					CCACTCTGTGCGACCCCCCTT	0.602000										Multiple Myeloma(10;0.10)			5	10					0	0	1	0	0
NAA30	122830	broad.mit.edu	37	14	57858352	57858352	+	Missense_Mutation	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr14:57858352A>G	ENST00000556492.1	+	2	831	c.677A>G	c.(676-678)gAt>gGt	p.D226G	NAA30_ENST00000555166.1_Intron|NAA30_ENST00000554703.1_Intron	NM_001011713.2	NP_001011713.2	Q147X3	NAA30_HUMAN	N(alpha)-acetyltransferase 30, NatC catalytic subunit	226	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(2)|skin(2)	13						CAAATGCCCGATATCATGAGA	0.488000													5	169					0	0	1	0	0
OR8J3	81168	broad.mit.edu	37	11	55905035	55905035	+	Missense_Mutation	SNP	G	G	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr11:55905035G>C	ENST00000301529.1	-	1	159	c.160C>G	c.(160-162)Cga>Gga	p.R54G		NM_001004064.1	NP_001004064.1	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J, member 3	54					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(1)|lung(38)|pancreas(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)	59	Esophageal squamous(21;0.00693)					TTTTGAAGTCGAGAGTCAACA	0.473000													5	71					0	0	1	0	0
PTPN3	0	broad.mit.edu	37	9	112185070	112185070	+	Missense_Mutation	SNP	C	C	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr9:112185070C>A	ENST00000412145.1	-	8	3224	c.671G>T	c.(670-672)cGg>cTg	p.R224L	PTPN3_ENST00000262539.3_Intron|PTPN3_ENST00000446349.1_Intron|PTPN3_ENST00000374541.2_Missense_Mutation_p.R355L	NM_001145369.1|NM_001145371.1	NP_001138841.1|NP_001138843.1	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	355	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						TAAGGATCTCCGCATGGCTGG	0.453000													4	104					0.00909568	0.00940932	1	1	0
JAM3	83700	broad.mit.edu	37	11	134014247	134014247	+	Missense_Mutation	SNP	G	G	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr11:134014247G>A	ENST00000299106.4	+	4	527	c.368G>A	c.(367-369)cGc>cAc	p.R123H	JAM3_ENST00000524969.1_3'UTR|JAM3_ENST00000441717.3_Intron|JAM3_ENST00000529443.2_Missense_Mutation_p.R168H			Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3	123	Ig-like V-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			breast(1)|endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)	10	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		CGAAATGACCGCAAGGAAATT	0.488000													3	53					0	0	1	0	0
AC024560.3	0	broad.mit.edu	37	3	197348674	197348674	+	RNA	SNP	A	A	G	rs144273946	by1000genomes	TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr3:197348674A>G	ENST00000418868.1	-	0	585					NR_003266.2																						GGCTCTGTCCACCAAATGCAC	0.478000													3	78					0	0	1	0	0
PTPN3	0	broad.mit.edu	37	9	112185069	112185069	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr9:112185069C>T	ENST00000412145.1	-	8	3225	c.672G>A	c.(670-672)cgG>cgA	p.R224R	PTPN3_ENST00000262539.3_Intron|PTPN3_ENST00000446349.1_Intron|PTPN3_ENST00000374541.2_Silent_p.R355R	NM_001145369.1|NM_001145371.1	NP_001138841.1|NP_001138843.1	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	355	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						ATAAGGATCTCCGCATGGCTG	0.453000													4	107					0	0	1	0	0
INPP5D	3635	broad.mit.edu	37	2	234102471	234102471	+	Silent	SNP	T	T	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr2:234102471T>C	ENST00000359570.5	+	25	2424	c.2424T>C	c.(2422-2424)atT>atC	p.I808I	INPP5D_ENST00000450745.1_Silent_p.I572I|INPP5D_ENST00000455936.2_Silent_p.I572I			Q92835	SHIP1_HUMAN	inositol polyphosphate-5-phosphatase, 145kDa	820					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			central_nervous_system(1)|ovary(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		AGGGCTGCATTGCCCTTCGGT	0.582000													24	53					0	0	1	0	0
STAB2	55576	broad.mit.edu	37	12	104140440	104140440	+	Missense_Mutation	SNP	G	G	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr12:104140440G>C	ENST00000388887.2	+	58	6406	c.6202G>C	c.(6202-6204)Gag>Cag	p.E2068Q	RP11-341G23.4_ENST00000551299.1_RNA	NM_017564.9	NP_060034.9	Q8WWQ8	STAB2_HUMAN	stabilin 2	2068	EGF-like 15.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			NS(4)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(15)|kidney(11)|large_intestine(26)|lung(77)|ovary(10)|pancreas(1)|prostate(5)|skin(14)|stomach(2)	174						CAACACGTGTGAGTGTAACCT	0.502000													33	150					0	0	1	0	0
ADAMTS8	11095	broad.mit.edu	37	11	130278724	130278724	+	Missense_Mutation	SNP	T	T	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr11:130278724T>C	ENST00000257359.6	-	7	2568	c.1862A>G	c.(1861-1863)gAc>gGc	p.D621G		NM_007037.4	NP_008968.4	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 8	621	Cys-rich.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)|skin(1)	10	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CTTGCAGCGGTCCCGGGGGGA	0.577000													23	87					0	0	1	0	0
HLX	3142	broad.mit.edu	37	1	221053618	221053618	+	Missense_Mutation	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr1:221053618C>T	ENST00000366903.6	+	1	1920	c.419C>T	c.(418-420)cCt>cTt	p.P140L		NM_021958.3	NP_068777.1	Q14774	HLX_HUMAN	H2.0-like homeobox	140	Pro-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(9)|lung(11)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	32				GBM - Glioblastoma multiforme(131;0.00914)		cagcCTCCGCCTCCGCCCCGG	0.711000													4	18					0	0	1	0	0
CSMD2	114784	broad.mit.edu	37	1	34090179	34090179	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr1:34090179C>T	ENST00000373381.4	-	35	5741	c.5565G>A	c.(5563-5565)ccG>ccA	p.P1855P	CSMD2_ENST00000373377.1_5'UTR|CSMD2_ENST00000373380.1_Silent_p.P728P|CSMD2_ENST00000373388.2_5'UTR	NM_052896.3	NP_443128.2	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1815	CUB 11.					integral to membrane|plasma membrane	protein binding			NS(5)|breast(5)|central_nervous_system(3)|cervix(2)|endometrium(20)|haematopoietic_and_lymphoid_tissue(4)|kidney(9)|large_intestine(43)|lung(114)|ovary(8)|pancreas(1)|prostate(6)|skin(20)|upper_aerodigestive_tract(5)|urinary_tract(1)	246		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGTTGAGGTACGGCTCTGGGA	0.662000													3	45					0	0	1	0	0
TNRC6A	27327	broad.mit.edu	37	16	24817584	24817584	+	Missense_Mutation	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr16:24817584C>T	ENST00000395799.3	+	16	4438	c.4309C>T	c.(4309-4311)Cgg>Tgg	p.R1437W	CTD-2515A14.1_ENST00000568895.1_RNA|TNRC6A_ENST00000315183.7_Missense_Mutation_p.R1388W	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1437					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		TTCTGGGAACCGGCCGCAGCA	0.498000													6	34					0	0	1	0	0
STAT3	6774	broad.mit.edu	37	17	40478180	40478180	+	Missense_Mutation	SNP	G	G	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr17:40478180G>A	ENST00000264657.5	-	15	1631	c.1319C>T	c.(1318-1320)aCc>aTc	p.T440I	STAT3_ENST00000389272.3_Missense_Mutation_p.T342I|STAT3_ENST00000588969.1_Missense_Mutation_p.T440I|STAT3_ENST00000585517.1_Missense_Mutation_p.T440I|STAT3_ENST00000404395.3_Missense_Mutation_p.T440I	NM_003150.3|NM_139276.2	NP_003141.2|NP_644805.1	P40763	STAT3_HUMAN	signal transducer and activator of transcription 3 (acute-phase response factor)	440					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(3)|lung(12)|ovary(1)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		GGTCTCAAAGGTGATCAGGTG	0.532000									Hyperimmunoglobulin E Recurrent Infection Syndrome				3	30					0	0	1	0	0
EDAR	10913	broad.mit.edu	37	2	109545753	109545753	+	Missense_Mutation	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr2:109545753A>G	ENST00000409271.1	-	5	700	c.257T>C	c.(256-258)aTa>aCa	p.I86T	EDAR_ENST00000258443.2_Missense_Mutation_p.I86T|EDAR_ENST00000376651.1_Missense_Mutation_p.I86T			Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor	86					apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(3)|lung(6)|prostate(1)|skin(1)	16						ACGCCTGCATATCTGGTAGCC	0.607000													3	31					0	0	1	0	0
PRG4	10216	broad.mit.edu	37	1	186276565	186276565	+	Missense_Mutation	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr1:186276565A>G	ENST00000445192.2	+	7	1759	c.1714A>G	c.(1714-1716)Acc>Gcc	p.T572A	PRG4_ENST00000367486.3_Missense_Mutation_p.T529A|PRG4_ENST00000367484.3_Intron|PRG4_ENST00000367485.4_Missense_Mutation_p.T479A|PRG4_ENST00000367483.4_Missense_Mutation_p.T531A	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	572	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.T572A(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						TGCACCCACCACCCCCAAGAA	0.642000													3	41					0	0	1	0	0
ZNF733P	0	broad.mit.edu	37	7	62752443	62752443	+	RNA	SNP	G	G	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr7:62752443G>C	ENST00000331425.6	-	0	992					NR_003952.1																						CTTATGTCTAGTAAGGTTTGA	0.438000													3	14					0	0	1	0	0
MYO5A	4644	broad.mit.edu	37	15	52646099	52646099	+	Missense_Mutation	SNP	T	T	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr15:52646099T>G	ENST00000399231.3	-	26	3779	c.3536A>C	c.(3535-3537)aAg>aCg	p.K1179T	MYO5A_ENST00000356338.6_Missense_Mutation_p.K1179T|MYO5A_ENST00000358212.6_Missense_Mutation_p.K1179T|MYO5A_ENST00000399233.2_Missense_Mutation_p.K1179T|MYO5A_ENST00000553916.1_Missense_Mutation_p.K1179T	NM_000259.3	NP_000250.3	Q9Y4I1	MYO5A_HUMAN	myosin VA (heavy chain 12, myoxin)	1179					actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(7)|large_intestine(12)|lung(19)|ovary(3)|skin(3)|stomach(1)	57				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CTGCTCCTCCTTGCGGTCCAG	0.562000													9	75					0	0	1	0	0
SVOP	55530	broad.mit.edu	37	12	109332604	109332604	+	Splice_Site	SNP	T	T	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr12:109332604T>C	ENST00000299134.5	-	7	699	c.701_splice	c.e7+1	p.R234_splice		NM_018711.2	NP_061181.1	Q8N4V2	SVOP_HUMAN	SV2 related protein homolog (rat)	0						cell junction|integral to membrane|synaptic vesicle membrane	ion transmembrane transporter activity			breast(2)|lung(4)	6						GGCACTGACCTGTCTGGAGAT	0.542000													5	194					0	0	1	0	0
ARNT	0	broad.mit.edu	37	1	150812108	150812108	+	Missense_Mutation	SNP	G	G	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr1:150812108G>A	ENST00000358595.5	-	6	495	c.295C>T	c.(295-297)Cgg>Tgg	p.R99W	ARNT_ENST00000354396.2_Missense_Mutation_p.R99W|ARNT_ENST00000515192.1_Missense_Mutation_p.R90W|ARNT_ENST00000505755.1_Missense_Mutation_p.R84W	NM_001197325.1|NM_001668.3|NM_178427.2	NP_001184254.1|NP_001659.1|NP_848514.1	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	99	Poly-Arg.				positive regulation of hormone biosynthetic process|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hypoxia		aryl hydrocarbon receptor binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(11)|prostate(2)|skin(4)|stomach(1)	34	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.02)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGTCGCCGCCGTTCAATTTCA	0.493000			T	ETV6	AML								3	10					0	0	1	0	0
FN1	2335	broad.mit.edu	37	2	216273109	216273109	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr2:216273109C>T	ENST00000354785.4	-	16	2709	c.2340G>A	c.(2338-2340)ctG>ctA	p.L780L	FN1_ENST00000346544.3_Silent_p.L780L|FN1_ENST00000421182.1_Silent_p.L780L|FN1_ENST00000359671.1_Silent_p.L780L|FN1_ENST00000357867.4_Silent_p.L780L|FN1_ENST00000357009.2_Silent_p.L780L|FN1_ENST00000345488.5_Silent_p.L780L|FN1_ENST00000336916.4_Silent_p.L780L|FN1_ENST00000323926.6_Silent_p.L780L|FN1_ENST00000446046.1_Silent_p.L780L|FN1_ENST00000443816.1_Silent_p.L780L|FN1_ENST00000432072.2_Silent_p.L780L|FN1_ENST00000356005.4_Silent_p.L780L			P02751	FINC_HUMAN	fibronectin 1	780	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding		FN1/ALK(2)	NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(7)|endometrium(9)|kidney(8)|large_intestine(33)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	109		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCAGGAAGCAGGTCAGGGA	0.423000													13	36					0	0	1	0	0
MAGED1	9500	broad.mit.edu	37	X	51637809	51637809	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chrX:51637809C>T	ENST00000375695.2	+	3	285	c.132C>T	c.(130-132)tgC>tgT	p.C44C	MAGED1_ENST00000375722.1_Intron|MAGED1_ENST00000326587.7_Intron|MAGED1_ENST00000375772.3_Intron|MAGED1_ENST00000494718.1_Intron	NM_001005333.1	NP_001005333.1	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1	0					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding	p.C44C(1)		breast(1)|endometrium(4)|large_intestine(10)|lung(13)|ovary(3)|upper_aerodigestive_tract(1)	32	Ovarian(276;0.236)					CCACTCTGTGCGACCCCCCTT	0.602000										Multiple Myeloma(10;0.10)			5	10					0	0	1	0	0
NAA30	122830	broad.mit.edu	37	14	57858352	57858352	+	Missense_Mutation	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr14:57858352A>G	ENST00000556492.1	+	2	831	c.677A>G	c.(676-678)gAt>gGt	p.D226G	NAA30_ENST00000554703.1_Intron|NAA30_ENST00000555166.1_Intron	NM_001011713.2	NP_001011713.2	Q147X3	NAA30_HUMAN	N(alpha)-acetyltransferase 30, NatC catalytic subunit	226	N-acetyltransferase.					cytoplasm	peptide alpha-N-acetyltransferase activity			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(2)|skin(2)	13						CAAATGCCCGATATCATGAGA	0.488000													5	169					0	0	1	0	0
OR8J3	81168	broad.mit.edu	37	11	55905035	55905035	+	Missense_Mutation	SNP	G	G	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr11:55905035G>C	ENST00000301529.1	-	1	159	c.160C>G	c.(160-162)Cga>Gga	p.R54G		NM_001004064.1	NP_001004064.1	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J, member 3	54					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(1)|lung(38)|pancreas(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)	59	Esophageal squamous(21;0.00693)					TTTTGAAGTCGAGAGTCAACA	0.473000													5	71					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414343	20414343	+	Silent	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr9:20414343A>G	ENST00000380338.4	-	5	787	c.501T>C	c.(499-501)agT>agC	p.S167S	MLLT3_ENST00000429426.2_Silent_p.S164S|MLLT3_ENST00000475957.1_5'UTR|MLLT3_ENST00000355930.6_5'UTR	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	167	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S167S(19)		central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctactgctgctgc	0.532000			T	MLL	ALL								4	42					0	0	1	0	0
PTPN3	0	broad.mit.edu	37	9	112185070	112185070	+	Missense_Mutation	SNP	C	C	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr9:112185070C>A	ENST00000412145.1	-	8	3224	c.671G>T	c.(670-672)cGg>cTg	p.R224L	PTPN3_ENST00000374541.2_Missense_Mutation_p.R355L|PTPN3_ENST00000262539.3_Intron|PTPN3_ENST00000446349.1_Intron	NM_001145369.1|NM_001145371.1	NP_001138841.1|NP_001138843.1	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	355	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						TAAGGATCTCCGCATGGCTGG	0.453000													4	104					0.00909568	0.00909568	1	1	0
CTD-2620I22.1	0	broad.mit.edu	37	19	53472914	53472914	+	RNA	SNP	A	A	G			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr19:53472914A>G	ENST00000600068.1	-	0	489				ZNF702P_ENST00000270443.4_RNA																							TTTGATTTTCAATTAAAAACC	0.338000													3	13					0	0	1	0	0
JAM3	83700	broad.mit.edu	37	11	134014247	134014247	+	Missense_Mutation	SNP	G	G	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr11:134014247G>A	ENST00000299106.4	+	4	527	c.368G>A	c.(367-369)cGc>cAc	p.R123H	JAM3_ENST00000524969.1_3'UTR|JAM3_ENST00000529443.2_Missense_Mutation_p.R168H|JAM3_ENST00000441717.3_Intron			Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3	123	Ig-like V-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			breast(1)|endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)	10	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		CGAAATGACCGCAAGGAAATT	0.488000													3	53					0	0	1	0	0
AC024560.3	0	broad.mit.edu	37	3	197348674	197348674	+	RNA	SNP	A	A	G	rs144273946	by1000genomes	TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr3:197348674A>G	ENST00000418868.1	-	0	585					NR_003266.2																						GGCTCTGTCCACCAAATGCAC	0.478000													3	78					0	0	1	0	0
PTPN3	0	broad.mit.edu	37	9	112185069	112185069	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr9:112185069C>T	ENST00000412145.1	-	8	3225	c.672G>A	c.(670-672)cgG>cgA	p.R224R	PTPN3_ENST00000374541.2_Silent_p.R355R|PTPN3_ENST00000262539.3_Intron|PTPN3_ENST00000446349.1_Intron	NM_001145369.1|NM_001145371.1	NP_001138841.1|NP_001138843.1	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	355	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						ATAAGGATCTCCGCATGGCTG	0.453000													4	107					0	0	1	0	0
INPP5D	3635	broad.mit.edu	37	2	234102471	234102471	+	Silent	SNP	T	T	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr2:234102471T>C	ENST00000359570.5	+	25	2424	c.2424T>C	c.(2422-2424)atT>atC	p.I808I	INPP5D_ENST00000450745.1_Silent_p.I572I|INPP5D_ENST00000455936.2_Silent_p.I572I			Q92835	SHIP1_HUMAN	inositol polyphosphate-5-phosphatase, 145kDa	820					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			central_nervous_system(1)|ovary(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		AGGGCTGCATTGCCCTTCGGT	0.582000													24	53					0	0	1	0	0
STAB2	55576	broad.mit.edu	37	12	104140440	104140440	+	Missense_Mutation	SNP	G	G	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr12:104140440G>C	ENST00000388887.2	+	58	6406	c.6202G>C	c.(6202-6204)Gag>Cag	p.E2068Q	RP11-341G23.4_ENST00000551299.1_RNA	NM_017564.9	NP_060034.9	Q8WWQ8	STAB2_HUMAN	stabilin 2	2068	EGF-like 15.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			NS(4)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(15)|kidney(11)|large_intestine(26)|lung(77)|ovary(10)|pancreas(1)|prostate(5)|skin(14)|stomach(2)	174						CAACACGTGTGAGTGTAACCT	0.502000													33	150					0	0	1	0	0
ADAMTS8	11095	broad.mit.edu	37	11	130278724	130278724	+	Missense_Mutation	SNP	T	T	C			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr11:130278724T>C	ENST00000257359.6	-	7	2568	c.1862A>G	c.(1861-1863)gAc>gGc	p.D621G		NM_007037.4	NP_008968.4	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 8	621	Cys-rich.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)|skin(1)	10	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CTTGCAGCGGTCCCGGGGGGA	0.577000													23	87					0	0	1	0	0
RP11-798G7.5	0	broad.mit.edu	37	17	43587657	43587657	+	RNA	SNP	C	C	T	rs148404065	by1000genomes	TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr17:43587657C>T	ENST00000253803.2	+	0	267				LRRC37A4P_ENST00000579913.1_RNA																							GGTGACAACACATCTGTTTTA	0.323000													4	67					0	0	1	0	0
HLX	3142	broad.mit.edu	37	1	221053618	221053618	+	Missense_Mutation	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr1:221053618C>T	ENST00000366903.6	+	1	1920	c.419C>T	c.(418-420)cCt>cTt	p.P140L		NM_021958.3	NP_068777.1	Q14774	HLX_HUMAN	H2.0-like homeobox	140	Pro-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(9)|lung(11)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	32				GBM - Glioblastoma multiforme(131;0.00914)		cagcCTCCGCCTCCGCCCCGG	0.711000													4	18					0	0	1	0	0
CSMD2	114784	broad.mit.edu	37	1	34090179	34090179	+	Silent	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr1:34090179C>T	ENST00000373381.4	-	35	5741	c.5565G>A	c.(5563-5565)ccG>ccA	p.P1855P	CSMD2_ENST00000373377.1_5'UTR|CSMD2_ENST00000373380.1_Silent_p.P728P|CSMD2_ENST00000373388.2_5'UTR	NM_052896.3	NP_443128.2	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1815	CUB 11.					integral to membrane|plasma membrane	protein binding			NS(5)|breast(5)|central_nervous_system(3)|cervix(2)|endometrium(20)|haematopoietic_and_lymphoid_tissue(4)|kidney(9)|large_intestine(43)|lung(114)|ovary(8)|pancreas(1)|prostate(6)|skin(20)|upper_aerodigestive_tract(5)|urinary_tract(1)	246		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGTTGAGGTACGGCTCTGGGA	0.662000													3	45					0	0	1	0	0
TNRC6A	27327	broad.mit.edu	37	16	24817584	24817584	+	Missense_Mutation	SNP	C	C	T			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr16:24817584C>T	ENST00000395799.3	+	16	4438	c.4309C>T	c.(4309-4311)Cgg>Tgg	p.R1437W	TNRC6A_ENST00000315183.7_Missense_Mutation_p.R1388W|CTD-2515A14.1_ENST00000568895.1_RNA	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1437					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		TTCTGGGAACCGGCCGCAGCA	0.498000													6	34					0	0	1	0	0
STAT3	6774	broad.mit.edu	37	17	40478180	40478180	+	Missense_Mutation	SNP	G	G	A			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr17:40478180G>A	ENST00000264657.5	-	15	1631	c.1319C>T	c.(1318-1320)aCc>aTc	p.T440I	STAT3_ENST00000389272.3_Missense_Mutation_p.T342I|STAT3_ENST00000588969.1_Missense_Mutation_p.T440I|STAT3_ENST00000585517.1_Missense_Mutation_p.T440I|STAT3_ENST00000404395.3_Missense_Mutation_p.T440I	NM_003150.3|NM_139276.2	NP_003141.2|NP_644805.1	P40763	STAT3_HUMAN	signal transducer and activator of transcription 3 (acute-phase response factor)	440					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(3)|lung(12)|ovary(1)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		GGTCTCAAAGGTGATCAGGTG	0.532000									Hyperimmunoglobulin E Recurrent Infection Syndrome				3	30					0	0	1	0	0
KRT1	3848	broad.mit.edu	37	12	53069236	53069256	+	In_Frame_Del	DEL	TAGCTGCTACCTCCGGAGCCA	TAGCTGCTACCTCCGGAGCCA	-	rs66529359	by1000genomes	TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr12:53069236_53069256delTAGCTGCTACCTCCGGAGCCA	ENST00000252244.3	-	9	1714_1734	c.1656_1676delTGGCTCCGGAGGTAGCAGCTA	c.(1654-1677)tac>ta	p.YGSGGSSY552del		NM_006121.3	NP_006112.3	P04264	K2C1_HUMAN	keratin 1	552	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding	p.S557_G563delSSYGSGG(3)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(7)|skin(3)	39						tccggagccgtagctgctacctccggagccatagctgccac	0.688													3	4	---	---	---	---					
INO80E	283899	broad.mit.edu	37	16	30007665	30007665	+	Frame_Shift_Del	DEL	A	A	-			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr16:30007665delA	ENST00000563197.1	+	1	1051	c.34delA	c.(34-36)aafs	p.K14fs	INO80E_ENST00000567705.1_Frame_Shift_Del_p.K14fs|INO80E_ENST00000563040.1_3'UTR|INO80E_ENST00000567254.1_Frame_Shift_Del_p.K14fs|INO80E_ENST00000304516.7_Frame_Shift_Del_p.K14fs|HIRIP3_ENST00000279392.3_5'UTR	NM_173618.1	NP_775889.1	Q8NBZ0	IN80E_HUMAN	INO80 complex subunit E	14					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex				endometrium(1)|large_intestine(2)|lung(1)|skin(1)|urinary_tract(1)	6						AGTGGACTACAAAAAAAAATA	0.632													2	4	---	---	---	---					
FRG1B	0	broad.mit.edu	37	20	29628226	29628226	+	Splice_Site	DEL	G	G	-	rs78710112	by1000genomes	TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	95d751ac-600e-4020-acba-eabb0c007b98	g.chr20:29628226delG	ENST00000278882.3	+	6	608		c.e6-1		FRG1B_ENST00000358464.4_Splice_Site|FRG1B_ENST00000439954.2_Splice_Site																endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GTTTCACTTAGGGGAAAATGG	0.358													11	99	---	---	---	---					
INO80E	283899	broad.mit.edu	37	16	30007665	30007665	+	Frame_Shift_Del	DEL	A	A	-			TCGA-P8-A5KC-01A-11D-A35D-08	TCGA-P8-A5KC-11A-11D-A35D-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	38099922-86e9-42a0-853b-b968e60ca1d9	53974e4d-8f60-42da-99b9-e07513f66e3e	g.chr16:30007665delA	ENST00000563197.1	+	1	1051	c.34delA	c.(34-36)aafs	p.K14fs	INO80E_ENST00000563040.1_3'UTR|INO80E_ENST00000567705.1_Frame_Shift_Del_p.K14fs|INO80E_ENST00000304516.7_Frame_Shift_Del_p.K14fs|HIRIP3_ENST00000279392.3_5'UTR|INO80E_ENST00000567254.1_Frame_Shift_Del_p.K14fs	NM_173618.1	NP_775889.1	Q8NBZ0	IN80E_HUMAN	INO80 complex subunit E	14					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex				endometrium(1)|large_intestine(2)|lung(1)|skin(1)|urinary_tract(1)	6						AGTGGACTACAAAAAAAAATA	0.632													2	4	---	---	---	---					
