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
PLXDC2	84898	broad.mit.edu	37	10	20432323	20432323	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr10:20432323C>T	ENST00000377252.3	+	5	1482	c.641C>T	c.(640-642)tCa>tTa	p.S214L	PLXDC2_ENST00000377238.2_3'UTR|PLXDC2_ENST00000377242.3_Missense_Mutation_p.S165L	NM_032812.7	NP_116201.7	Q6UX71	PXDC2_HUMAN	plexin domain containing 2	214						integral to membrane				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|liver(1)|lung(9)|ovary(2)|skin(3)|stomach(1)	34						TCCAGAAATTCAACTGTCAGA	0.358000													40	10					0	0	0.00222228	0	0
IZUMO2	126123	broad.mit.edu	37	19	50657868	50657868	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr19:50657868G>A	ENST00000293405.3	-	6	612	c.612C>T	c.(610-612)gtC>gtT	p.V204V		NM_152358.2	NP_689571.2	Q6UXV1	IZUM2_HUMAN	IZUMO family member 2	204						integral to membrane				cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	7						AGACCACGATGACCACGAAGA	0.587000													30	41					0	0	0.00127121	0	0
TAS2R60	338398	broad.mit.edu	37	7	143141184	143141184	+	Missense_Mutation	SNP	G	G	A	rs141559059		TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:143141184G>A	ENST00000332690.1	+	1	639	c.639G>A	c.(637-639)atG>atA	p.M213I	EPHA1-AS1_ENST00000429289.1_RNA	NM_177437.1	NP_803186.1	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	213					sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity	p.M213I(2)		breast(1)|kidney(1)|large_intestine(2)|lung(17)|prostate(1)|skin(7)|urinary_tract(2)	31	Melanoma(164;0.172)					TCATTTGCATGATTTTGCTCA	0.463000													41	74					0	0	0.0025221	0	0
MBD3	53615	broad.mit.edu	37	19	1578395	1578395	+	Missense_Mutation	SNP	C	C	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr19:1578395C>G	ENST00000590550.2	-	5	1025	c.652G>C	c.(652-654)Gac>Cac	p.D218H	MBD3_ENST00000434436.3_Missense_Mutation_p.D274H|MBD3_ENST00000156825.1_Missense_Mutation_p.D274H|MBD3_ENST00000592012.1_Missense_Mutation_p.D242H			O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	274					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			central_nervous_system(1)|large_intestine(1)|lung(2)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	8		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		tcctcctcgtcttcctcgtcg	0.716000													21	25					0	0	0.00121646	0	0
PLXDC2	84898	broad.mit.edu	37	10	20466284	20466284	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr10:20466284C>T	ENST00000377252.3	+	9	1848	c.1007C>T	c.(1006-1008)cCc>cTc	p.P336L	PLXDC2_ENST00000377238.2_3'UTR|PLXDC2_ENST00000377242.3_Missense_Mutation_p.P287L	NM_032812.7	NP_116201.7	Q6UX71	PXDC2_HUMAN	plexin domain containing 2	336	PSI.					integral to membrane				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|liver(1)|lung(9)|ovary(2)|skin(3)|stomach(1)	34						AGATGTGGCCCCTGTGTATCT	0.363000													37	8					0	0	0.00222228	0	0
LGSN	51557	broad.mit.edu	37	6	63990777	63990777	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr6:63990777G>A	ENST00000370657.4	-	4	712	c.679C>T	c.(679-681)Cct>Tct	p.P227S	LGSN_ENST00000370658.5_Intron			Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase domain	227					glutamine biosynthetic process		glutamate-ammonia ligase activity			NS(1)|endometrium(2)|large_intestine(5)|lung(16)|prostate(4)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	34					L-Glutamic Acid(DB00142)	GTTAAAGCAGGAAAAGATATA	0.398000													16	29					0	0	0.000422831	0	0
BMP2K	55589	broad.mit.edu	37	4	79793862	79793862	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr4:79793862C>T	ENST00000335016.5	+	13	1869	c.1703C>T	c.(1702-1704)cCt>cTt	p.P568L	BMP2K_ENST00000502871.1_Missense_Mutation_p.P568L	NM_198892.1	NP_942595.1	Q9NSY1	BMP2K_HUMAN	BMP2 inducible kinase	568						nucleus	ATP binding|protein serine/threonine kinase activity			NS(1)|breast(1)|endometrium(4)|large_intestine(2)|lung(3)|prostate(1)|urinary_tract(1)	13						CTTACCTCCCCTCAAGAGTTC	0.463000													29	9					0	0	0.000878237	0	0
MROH9	80133	broad.mit.edu	37	1	170959135	170959135	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr1:170959135C>T	ENST00000367759.4	+	11	1173	c.1019C>T	c.(1018-1020)cCa>cTa	p.P340L	MROH9_ENST00000367758.3_Missense_Mutation_p.P340L	NM_001163629.1	NP_001157101.1			maestro heat-like repeat family member 9																		TACCCAGTTCCAGCAGACGAG	0.473000													16	17					0	0	0.000958276	0	0
CTNND2	1501	broad.mit.edu	37	5	10992701	10992701	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr5:10992701G>A	ENST00000304623.8	-	19	3362	c.3173C>T	c.(3172-3174)tCc>tTc	p.S1058F	CTNND2_ENST00000511377.1_Missense_Mutation_p.S967F|CTNND2_ENST00000503622.1_Missense_Mutation_p.S721F|CTNND2_ENST00000359640.2_Missense_Mutation_p.S1000F|CTNND2_ENST00000458100.2_Missense_Mutation_p.S625F|CTNND2_ENST00000495388.2_5'UTR	NM_001332.2	NP_001323.1	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	1058					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(29)|liver(1)|lung(71)|ovary(4)|pancreas(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	136						AGGGGAGATGGAGGGCGTGCG	0.572000													36	43					0	0	0.00170553	0	0
STOML3	161003	broad.mit.edu	37	13	39550878	39550878	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr13:39550878G>A	ENST00000379631.4	-	2	453	c.109C>T	c.(109-111)Ctg>Ttg	p.L37L	STOML3_ENST00000423210.1_Silent_p.L28L	NM_145286.2	NP_660329.1	Q8TAV4	STML3_HUMAN	stomatin (EPB72)-like 3	37						integral to membrane|plasma membrane				breast(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|skin(1)	11		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		ATCACCAACAGGAAAGAGAGG	0.418000													11	17					0	0	0.00136819	0	0
VARS	7407	broad.mit.edu	37	6	31759399	31759399	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr6:31759399G>A	ENST00000375663.3	-	8	1528	c.1088C>T	c.(1087-1089)tCc>tTc	p.S363F	VARS_ENST00000444930.2_Missense_Mutation_p.S68F	NM_006295.2	NP_006286.1	P26640	SYVC_HUMAN	valyl-tRNA synthetase	363					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(18)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	30					L-Valine(DB00161)	TCGAGTCAGGGAGTCCTGGAT	0.592000													98	184					0	0	0.000781405	0	0
HDAC6	10013	broad.mit.edu	37	X	48681101	48681101	+	Silent	SNP	A	A	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chrX:48681101A>C	ENST00000334136.5	+	24	2587	c.2409A>C	c.(2407-2409)ccA>ccC	p.P803P	HDAC6_ENST00000376619.2_Silent_p.P803P|HDAC6_ENST00000444343.2_Silent_p.P817P			Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	803					aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding	p.P803P(2)		breast(2)|endometrium(6)|kidney(5)|large_intestine(8)|lung(9)|ovary(3)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	40					Vorinostat(DB02546)	GAGACCCACCACCCCTGCTGA	0.587000													6	28					0	0	0.00136819	0	0
MYO15A	51168	broad.mit.edu	37	17	18022636	18022636	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr17:18022636C>T	ENST00000205890.5	+	2	860	c.522C>T	c.(520-522)ttC>ttT	p.F174F		NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	174	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					AACTCCCCTTCCCGTCGGGTG	0.711000													24	27					0	0	0.000720815	0	0
HOXA11	3207	broad.mit.edu	37	7	27222434	27222434	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:27222434G>A	ENST00000006015.3	-	2	994	c.923C>T	c.(922-924)tCa>tTa	p.S308L		NM_005523.5	NP_005514.1	P31270	HXA11_HUMAN	homeobox A11	308					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			NS(1)|breast(1)|endometrium(1)|large_intestine(2)|lung(8)|ovary(1)|skin(2)	16						TGGATTTGCTGAGTAGTACTG	0.443000			T	NUP98	CML								27	49					0	0	0.001512	0	0
GIMAP2	26157	broad.mit.edu	37	7	150389632	150389632	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:150389632C>T	ENST00000223293.5	+	3	352	c.258C>T	c.(256-258)gaC>gaT	p.D86D		NM_015660.2	NP_056475.1	Q9UG22	GIMA2_HUMAN	GTPase, IMAP family member 2	86						integral to membrane	GTP binding			kidney(1)|large_intestine(1)|lung(8)|skin(2)|urinary_tract(1)	13			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CTTGGAAGGAccactgtgaag	0.502000													20	21					0	0	0.000958276	0	0
DTX2	113878	broad.mit.edu	37	7	76112398	76112398	+	Missense_Mutation	SNP	G	G	A	rs142155908	byFrequency	TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:76112398G>A	ENST00000324432.5	+	5	1352	c.842G>A	c.(841-843)cGc>cAc	p.R281H	DTX2_ENST00000413936.2_Missense_Mutation_p.R281H|DTX2_ENST00000307569.8_Missense_Mutation_p.R281H|DTX2_ENST00000446600.1_Missense_Mutation_p.R190H|DTX2_ENST00000430490.2_Missense_Mutation_p.R281H|DTX2_ENST00000446820.2_Missense_Mutation_p.R281H	NM_020892.2	NP_065943.2	Q86UW9	DTX2_HUMAN	deltex homolog 2 (Drosophila)	281					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			NS(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(14)|ovary(1)|skin(1)|stomach(2)	27						CCCCTCTACCGCTCCAGCCTC	0.682000													8	64					0	0	0.00244969	0	0
ZNF334	55713	broad.mit.edu	37	20	45130161	45130161	+	Missense_Mutation	SNP	C	C	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr20:45130161C>A	ENST00000457685.2	-	6	3026	c.1703G>T	c.(1702-1704)gGg>gTg	p.G568V	ZNF334_ENST00000593880.1_Missense_Mutation_p.G629V|ZNF334_ENST00000347606.4_Missense_Mutation_p.G606V			Q9HCZ1	ZN334_HUMAN	zinc finger protein 334	606					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	32		Myeloproliferative disorder(115;0.0122)				GAAGGATTTCCCACATTCATT	0.423000													37	211					6.29468e-14	3.13409e-13	0.000953801	1	0
SGCZ	137868	broad.mit.edu	37	8	14412245	14412245	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr8:14412245G>A	ENST00000382080.1	-	2	945	c.230C>T	c.(229-231)aCt>aTt	p.T77I	SGCZ_ENST00000421524.2_Missense_Mutation_p.T64I	NM_139167.2	NP_631906.2	Q96LD1	SGCZ_HUMAN	sarcoglycan, zeta	64					cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				NS(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(14)|lung(15)|ovary(2)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	47				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		ACTTACCACAGTGAAATTCAT	0.328000													16	22					0	0	0.000422831	0	0
CCDC170	80129	broad.mit.edu	37	6	151939193	151939193	+	Nonsense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr6:151939193C>T	ENST00000367290.5	+	11	2169	c.2080C>T	c.(2080-2082)Cag>Tag	p.Q694*	CCDC170_ENST00000239374.7_Nonsense_Mutation_p.Q687*			Q8IYT3	CF097_HUMAN	coiled-coil domain containing 170	687																	CCATTCACATCAGCATCACTT	0.473000													43	54					0	0	0.00222228	0	0
IL9R	3581	broad.mit.edu	37	X	155233493	155233493	+	Nonsense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chrX:155233493G>A	ENST00000540897.1	+	5	578	c.510G>A	c.(508-510)tgG>tgA	p.W170*	IL9R_ENST00000244174.5_Missense_Mutation_p.D136N|IL9R_ENST00000424344.3_Missense_Mutation_p.D115N|IL9R_ENST00000369423.2_Nonsense_Mutation_p.W180*	NM_176786.1	NP_789743.2	Q01113	IL9R_HUMAN	interleukin 9 receptor	134	Fibronectin type-III.				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity			NS(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(3)|large_intestine(1)|lung(12)|upper_aerodigestive_tract(1)	23	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CAGCCTGGTGGACCCGGAGTA	0.622000													25	61					0	0	0.00178596	0	0
STC1	6781	broad.mit.edu	37	8	23709033	23709033	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr8:23709033G>A	ENST00000290271.2	-	3	556	c.273C>T	c.(271-273)ttC>ttT	p.F91F	STC1_ENST00000524323.1_Silent_p.F22F	NM_003155.2	NP_003146.1	P52823	STC1_HUMAN	stanniocalcin 1	91					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			breast(1)|cervix(1)|endometrium(3)|large_intestine(4)|lung(9)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	26		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		TCTCTTTGACGAATGCTTTTC	0.507000													15	23					0	0	0.00244969	0	0
SALL4	57167	broad.mit.edu	37	20	50400980	50400980	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr20:50400980G>A	ENST00000217086.4	-	4	3097	c.2986C>T	c.(2986-2988)Cct>Tct	p.P996S	SALL4_ENST00000395997.3_Missense_Mutation_p.P559S|SALL4_ENST00000371539.3_Missense_Mutation_p.P219S	NM_020436.3	NP_065169.1	Q9UJQ4	SALL4_HUMAN	spalt-like transcription factor 4	996					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(27)|ovary(5)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						GGGAGGGTAGGAACCCCCCCA	0.557000													28	71					0	0	0.00127121	0	0
FREM1	158326	broad.mit.edu	37	9	14841567	14841567	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr9:14841567G>A	ENST00000380881.4	-	11	2577	c.1762C>T	c.(1762-1764)Ctt>Ttt	p.L588F	FREM1_ENST00000380880.3_Missense_Mutation_p.L587F|FREM1_ENST00000422223.2_Missense_Mutation_p.L587F			Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1	587					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			breast(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(40)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	100				GBM - Glioblastoma multiforme(50;3.53e-06)		TCCCTCTGAAGGAAGCCATGG	0.383000													60	21					0	0	0.000781405	0	0
PAMR1	25891	broad.mit.edu	37	11	35454298	35454298	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:35454298G>A	ENST00000378880.2	-	11	2214	c.1769C>T	c.(1768-1770)tCc>tTc	p.S590F	PAMR1_ENST00000532848.1_Missense_Mutation_p.S550F|PAMR1_ENST00000278360.3_Missense_Mutation_p.S607F|PAMR1_ENST00000378878.3_Missense_Mutation_p.S479F	NM_001001991.1	NP_001001991.1	Q6UXH9	PAMR1_HUMAN	peptidase domain containing associated with muscle regeneration 1	590	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	26						CTCCTGGAAGGAAGTGCTGAG	0.597000													18	5					0	0	0.00074312	0	0
ATAD5	79915	broad.mit.edu	37	17	29220572	29220572	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr17:29220572G>A	ENST00000321990.4	+	21	5079	c.4701G>A	c.(4699-4701)aaG>aaA	p.K1567K		NM_024857.3	NP_079133.3	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1567					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(8)|kidney(3)|large_intestine(18)|lung(13)|ovary(3)|pancreas(1)	51		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AGAAACAAAAGAAAACATTGG	0.373000													14	29					0	0	0.00244969	0	0
ECEL1	9427	broad.mit.edu	37	2	233344912	233344912	+	Missense_Mutation	SNP	C	C	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr2:233344912C>A	ENST00000304546.1	-	18	2489	c.2279G>T	c.(2278-2280)tGt>tTt	p.C760F	ECEL1_ENST00000409941.1_Missense_Mutation_p.C758F	NM_004826.2	NP_004817.2	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	760					neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GTCCTTGGGACAGTGGAAAGC	0.652000													12	31					0.000151284	0.000745391	0.00185496	1	0
GRIN2A	2903	broad.mit.edu	37	16	9923387	9923387	+	Missense_Mutation	SNP	A	A	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr16:9923387A>T	ENST00000396573.2	-	10	2209	c.1900T>A	c.(1900-1902)Tgg>Agg	p.W634R	GRIN2A_ENST00000396575.2_Missense_Mutation_p.W634R|GRIN2A_ENST00000404927.2_Missense_Mutation_p.W634R|GRIN2A_ENST00000535259.1_Missense_Mutation_p.W477R|GRIN2A_ENST00000562109.1_Missense_Mutation_p.W634R|GRIN2A_ENST00000330684.3_Missense_Mutation_p.W634R	NM_000833.3	NP_000824.1	Q12879	NMDE1_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2A	634					response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			NS(7)|breast(5)|cervix(1)|endometrium(11)|kidney(6)|large_intestine(36)|lung(71)|ovary(4)|prostate(9)|skin(45)|upper_aerodigestive_tract(2)|urinary_tract(1)	198					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AAGAAGGCCCATACAGATACC	0.493000													34	36					0	0	0.00209593	0	0
CDH6	1004	broad.mit.edu	37	5	31317540	31317540	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr5:31317540C>T	ENST00000265071.2	+	10	1836	c.1571C>T	c.(1570-1572)tCg>tTg	p.S524L	CDH6_ENST00000514738.1_Missense_Mutation_p.S469L	NM_004932.3	NP_004923.1	P55285	CADH6_HUMAN	cadherin 6, type 2, K-cadherin (fetal kidney)	524	Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			NS(3)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(42)|ovary(4)|prostate(6)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	77						CACCAATTTTCGTTTTCCTTG	0.403000													43	14					0	0	0.000680045	0	0
FAM86C1	55199	broad.mit.edu	37	11	71507232	71507232	+	Missense_Mutation	SNP	C	C	G	rs113587125	by1000genomes	TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:71507232C>G	ENST00000528685.1	+	3	329	c.329C>G	c.(328-330)cCg>cGg	p.P110R	FAM86C1_ENST00000346333.6_Intron|FAM86C1_ENST00000359244.4_Intron|FAM86C1_ENST00000426628.2_Intron			Q9NVL1	FA86C_HUMAN	family with sequence similarity 86, member C1	0										lung(1)	1						CACGCCCACCCGGGCCTGCAT	0.612000													5	89					0	0	0.000157383	0	0
PRG4	10216	broad.mit.edu	37	1	186276052	186276052	+	Missense_Mutation	SNP	A	A	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr1:186276052A>C	ENST00000445192.2	+	7	1246	c.1201A>C	c.(1201-1203)Acc>Ccc	p.T401P	PRG4_ENST00000367486.3_Missense_Mutation_p.T358P|PRG4_ENST00000367485.4_Missense_Mutation_p.T308P|PRG4_ENST00000367484.3_Missense_Mutation_p.T360P|PRG4_ENST00000367483.4_Missense_Mutation_p.T360P	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	401	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.T401P(4)|p.T400>?(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						ACCCACCACCACCAAGGAGCC	0.642000													6	72					0	0	0.000442599	0	0
SPATA31A3	727830	broad.mit.edu	37	9	40702793	40702793	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr9:40702793C>T	ENST00000356699.5	+	4	479	c.450C>T	c.(448-450)tcC>tcT	p.S150S	SPATA31A3_ENST00000463536.1_3'UTR	NM_001083124.1	NP_001076593.1			SPATA31 subfamily A, member 3																		CCATTCTCTCCCTGTTAGCTT	0.597000													109	361					0	0	0.000781405	0	0
ACAP1	9744	broad.mit.edu	37	17	7251257	7251257	+	Missense_Mutation	SNP	T	T	C	rs143351258		TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr17:7251257T>C	ENST00000158762.3	+	15	1566	c.1360T>C	c.(1360-1362)Ttc>Ctc	p.F454L		NM_014716.3	NP_055531.1	Q15027	ACAP1_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH domains 1	454	Arf-GAP.|Required for interaction with GULP1.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			NS(1)|breast(5)|cervix(3)|endometrium(4)|kidney(1)|large_intestine(7)|liver(1)|lung(6)|prostate(3)|skin(1)|urinary_tract(1)	33						TGGTGTTCACTTCTCCAAAGT	0.597000													11	64					0	0	0.00136819	0	0
CDKN2A	1029	broad.mit.edu	37	9	21971208	21971208	+	Splice_Site	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr9:21971208C>T	ENST00000579755.1	-	2	486		c.e2-1		CDKN2A_ENST00000578845.2_5'UTR|CDKN2A_ENST00000361570.3_Splice_Site|CDKN2A_ENST00000498628.2_Splice_Site|RP11-145E5.5_ENST00000404796.2_Intron|CDKN2A_ENST00000446177.1_Splice_Site|CDKN2A_ENST00000479692.2_Splice_Site|CDKN2A_ENST00000304494.5_Splice_Site|CDKN2A_ENST00000530628.2_Splice_Site|CDKN2A_ENST00000494262.1_Splice_Site|CDKN2A_ENST00000497750.1_Splice_Site|CDKN2A_ENST00000498124.1_Splice_Site|CDKN2A_ENST00000579122.1_Splice_Site			P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A						cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein kinase binding	p.0?(1315)|p.?(38)|p.0(1)|p.V28_V51del(1)		NS(28)|adrenal_gland(6)|autonomic_ganglia(11)|biliary_tract(74)|bone(84)|breast(46)|central_nervous_system(522)|cervix(23)|endometrium(14)|eye(4)|genital_tract(15)|haematopoietic_and_lymphoid_tissue(698)|kidney(39)|large_intestine(11)|liver(92)|lung(365)|meninges(18)|oesophagus(239)|ovary(98)|pancreas(263)|pleura(94)|prostate(13)|salivary_gland(10)|skin(541)|small_intestine(1)|soft_tissue(93)|stomach(48)|thymus(4)|thyroid(24)|upper_aerodigestive_tract(436)|urinary_tract(283)|vulva(2)	4199		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TCATCATGACCTGCCAGAGAG	0.667000		17								HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			24	19					0	0	0.000586117	0	0
GLDN	342035	broad.mit.edu	37	15	51676081	51676081	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr15:51676081G>A	ENST00000335449.6	+	4	589	c.533G>A	c.(532-534)gGa>gAa	p.G178E	GLDN_ENST00000396399.2_Missense_Mutation_p.G54E	NM_181789.2	NP_861454.2	Q6ZMI3	GLDN_HUMAN	gliomedin	178	Collagen-like 1.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				central_nervous_system(1)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	19				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		GGAAAAAGAGGAAAAATGGGT	0.483000													13	27					0	0	0.00136819	0	0
KCNIP4	80333	broad.mit.edu	37	4	20734378	20734378	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr4:20734378C>T	ENST00000382148.3	-	6	829	c.493G>A	c.(493-495)Gat>Aat	p.D165N	KCNIP4_ENST00000382152.2_Missense_Mutation_p.D190N|KCNIP4_ENST00000382149.4_5'UTR|KCNIP4_ENST00000359001.5_Missense_Mutation_p.D128N|KCNIP4_ENST00000382150.4_Missense_Mutation_p.D169N|KCNIP4_ENST00000509207.1_Missense_Mutation_p.D128N|KCNIP4_ENST00000447367.2_Missense_Mutation_p.D156N|PACRGL_ENST00000507634.1_Intron	NM_001035003.1	NP_001030175.1	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4	190	EF-hand 3.					plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity			NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)	13		Breast(46;0.134)				CCCATCATATCGTATATTGCT	0.378000													22	29					0	0	0.00229938	0	0
NPSR1	387129	broad.mit.edu	37	7	34698172	34698172	+	Splice_Site	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:34698172G>A	ENST00000360581.1	+	1	275		c.e1+1		NPSR1_ENST00000359791.1_Splice_Site|NPSR1_ENST00000465305.1_Splice_Site|NPSR1_ENST00000381539.3_Splice_Site|AC005493.1_ENST00000399077.1_Intron|NPSR1-AS1_ENST00000419766.1_RNA|NPSR1_ENST00000381553.3_Splice_Site|NPSR1_ENST00000381542.1_Splice_Site|NPSR1_ENST00000531252.1_Splice_Site	NM_207172.1	NP_997055.1	Q6W5P4	NPSR1_HUMAN	neuropeptide S receptor 1							cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|lung(14)|pancreas(1)|skin(7)	31					Halothane(DB01159)	CTCCTTTAAGGTAAGTTTCTT	0.438000													29	32					0	0	0.00106085	0	0
KRTAP10-1	386677	broad.mit.edu	37	21	45959320	45959320	+	Silent	SNP	A	A	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr21:45959320A>G	ENST00000400375.1	-	1	758	c.714T>C	c.(712-714)ccT>ccC	p.P238P	TSPEAR_ENST00000397916.1_Intron|TSPEAR_ENST00000323084.4_Intron	NM_198691.2	NP_941964.2	P60331	KR101_HUMAN	keratin associated protein 10-1	238	24 X 5 AA repeats of C-C-X(3).					keratin filament				breast(1)|central_nervous_system(1)|endometrium(1)|lung(3)|prostate(4)|skin(1)	11						GCCGGCATACAGGGCGGCAGA	0.692000													5	83					0	0	0.00116845	0	0
RARS	5917	broad.mit.edu	37	5	167915736	167915736	+	Nonsense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr5:167915736C>T	ENST00000231572.3	+	2	229	c.175C>T	c.(175-177)Cga>Tga	p.R59*	RARS_ENST00000538719.1_5'UTR	NM_002887.3	NP_002878.2	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	59	Could be involved in the assembly of the multisynthetase complex.				arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding	p.R59*(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(11)|ovary(2)|skin(1)|stomach(1)	22	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		GAATATTCTTCGAAAGGTGAG	0.338000													20	30					0	0	0.00188189	0	0
LOC220729	220729	broad.mit.edu	37	3	197348739	197348739	+	RNA	SNP	G	G	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr3:197348739G>C	ENST00000418868.1	-	0	520					NR_003266.2																						TAATTTTCTAGCTGTGAAAGA	0.398000													4	73					0	0	0.000157383	0	0
PDE4DIP	9659	broad.mit.edu	37	1	144879494	144879494	+	Missense_Mutation	SNP	C	C	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr1:144879494C>A	ENST00000369359.4	-	30	4402	c.4364G>T	c.(4363-4365)cGg>cTg	p.R1455L	PDE4DIP_ENST00000524974.1_5'UTR|PDE4DIP_ENST00000313382.9_Missense_Mutation_p.R1275L|PDE4DIP_ENST00000369356.4_Missense_Mutation_p.R1319L|PDE4DIP_ENST00000369354.3_Missense_Mutation_p.R1319L|PDE4DIP_ENST00000530740.1_Missense_Mutation_p.R1455L			Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein	1319					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(12)|lung(106)|ovary(8)|prostate(7)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	176				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TGTTGAGCCCCGGCGTCCCTG	0.507000			T	PDGFRB	MPD								8	911					0.00116845	0.00558257	0.00116845	1	0
PDZD2	23037	broad.mit.edu	37	5	32058048	32058048	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr5:32058048C>T	ENST00000438447.1	+	12	2427	c.2039C>T	c.(2038-2040)cCc>cTc	p.P680L	PDZD2_ENST00000282493.3_Missense_Mutation_p.P680L			O15018	PDZD2_HUMAN	PDZ domain containing 2	680					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				NS(2)|breast(4)|central_nervous_system(5)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(31)|lung(58)|ovary(6)|prostate(2)|skin(8)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	148						AGCCTCACACCCTGCTCGACA	0.532000											OREG0016543	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	9					0	0	0.000308642	0	0
PKDREJ	10343	broad.mit.edu	37	22	46657077	46657077	+	Missense_Mutation	SNP	A	A	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr22:46657077A>T	ENST00000253255.5	-	1	2142	c.2143T>A	c.(2143-2145)Tcc>Acc	p.S715T		NM_006071.1	NP_006062.1	Q9NTG1	PKDRE_HUMAN	polycystin (PKD) family receptor for egg jelly	715	REJ.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			NS(2)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(4)|kidney(5)|large_intestine(21)|lung(16)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	73		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TTCAAAACGGAAGCTACTATA	0.398000													22	53					0	0	0.00188189	0	0
IL1R1	3554	broad.mit.edu	37	2	102785060	102785060	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr2:102785060G>A	ENST00000410023.1	+	7	976	c.658G>A	c.(658-660)Gaa>Aaa	p.E220K	IL1R1_ENST00000409589.1_Intron|IL1R1_ENST00000409929.1_Missense_Mutation_p.E220K|IL1R1_ENST00000409329.1_Missense_Mutation_p.E220K|IL1R1_ENST00000424272.1_Missense_Mutation_p.E220K|IL1R1_ENST00000233946.3_Missense_Mutation_p.E220K|IL1R1_ENST00000409288.1_Missense_Mutation_p.E220K			P14778	IL1R1_HUMAN	interleukin 1 receptor, type I	220					innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(4)|prostate(2)|skin(3)	19					Anakinra(DB00026)	TCTTTCAGAGGAAAACAAACC	0.428000													40	70					0	0	0.00285205	0	0
MEPE	56955	broad.mit.edu	37	4	88767038	88767038	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr4:88767038G>A	ENST00000497649.2	+	6	1324	c.946G>A	c.(946-948)Gat>Aat	p.D316N	MEPE_ENST00000560249.1_Missense_Mutation_p.D227N|MEPE_ENST00000508016.1_3'UTR|MEPE_ENST00000395102.4_Missense_Mutation_p.D371N|MEPE_ENST00000424957.3_Missense_Mutation_p.D340N|MEPE_ENST00000361056.3_Missense_Mutation_p.D340N|MEPE_ENST00000540395.1_Missense_Mutation_p.D227N			Q9NQ76	MEPE_HUMAN	matrix extracellular phosphoglycoprotein	340					skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding	p.D340N(1)		cervix(1)|endometrium(1)|kidney(3)|large_intestine(5)|lung(19)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)	36		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000432)		GGGCAGCAACGATATCATGGG	0.473000													42	8					0	0	0.00195071	0	0
DNMT1	1786	broad.mit.edu	37	19	10246815	10246815	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr19:10246815G>A	ENST00000340748.4	-	37	4825	c.4590C>T	c.(4588-4590)ccC>ccT	p.P1530P	DNMT1_ENST00000359526.4_Silent_p.P1546P|DNMT1_ENST00000540357.1_Silent_p.P1533P			P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1	1530	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			breast(5)|endometrium(8)|kidney(5)|large_intestine(21)|lung(11)|ovary(2)|pancreas(1)|prostate(10)|skin(5)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	CCATGGGCTCGGGGTTGGTGA	0.647000													27	32					0	0	0.001512	0	0
HIVEP2	3097	broad.mit.edu	37	6	143093699	143093699	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr6:143093699G>A	ENST00000367603.2	-	5	2919	c.2177C>T	c.(2176-2178)tCc>tTc	p.S726F	HIVEP2_ENST00000012134.2_Missense_Mutation_p.S726F|HIVEP2_ENST00000367604.1_Missense_Mutation_p.S726F	NM_006734.3	NP_006725.3	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer binding protein 2	726					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(2)|breast(4)|central_nervous_system(6)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(19)|lung(35)|ovary(4)|prostate(6)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	100				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GTCATAATCGGAAGCCATGAT	0.522000													37	37					0	0	0.00111076	0	0
BAHCC1	57597	broad.mit.edu	37	17	79409801	79409801	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr17:79409801C>T	ENST00000307745.7	+	9	1426	c.1426C>T	c.(1426-1428)Ccc>Tcc	p.P476S																								CAGCGCAGGCCCCGAGGCCTC	0.667000													9	8					0	0	0.000442599	0	0
GRIA4	2893	broad.mit.edu	37	11	105795269	105795269	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:105795269G>A	ENST00000393127.2	+	12	2067	c.1621G>A	c.(1621-1623)Gat>Aat	p.D541N	GRIA4_ENST00000525187.1_Missense_Mutation_p.D541N|GRIA4_ENST00000282499.5_Missense_Mutation_p.D541N|GRIA4_ENST00000530497.1_Missense_Mutation_p.D541N	NM_001077243.2	NP_001070711.2	P48058	GRIA4_HUMAN	glutamate receptor, ionotropic, AMPA 4	541					glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(24)|liver(2)|lung(25)|ovary(4)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(6)	82		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TTCCTTCTTGGATCCTCTGGC	0.423000													37	11					0	0	0.00111076	0	0
OTUD7A	161725	broad.mit.edu	37	15	31862357	31862357	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr15:31862357C>T	ENST00000382902.1	-	2	287	c.195G>A	c.(193-195)caG>caA	p.Q65Q	OTUD7A_ENST00000307050.4_Silent_p.Q65Q			Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	65						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			endometrium(7)|large_intestine(4)|lung(11)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	30		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CCTGGCGGAGCTGCTCATAGT	0.567000													37	43					0	0	0.00170553	0	0
SPATA31A3	727830	broad.mit.edu	37	9	40702792	40702792	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr9:40702792C>T	ENST00000356699.5	+	4	478	c.449C>T	c.(448-450)tCc>tTc	p.S150F	SPATA31A3_ENST00000463536.1_3'UTR	NM_001083124.1	NP_001076593.1			SPATA31 subfamily A, member 3																		CCCATTCTCTCCCTGTTAGCT	0.602000													106	355					0	0	0.000781405	0	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803646	142803646	+	RNA	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr1:142803646G>A	ENST00000423385.1	-	0	1319																											gttgtattctgggctagacat	0.299000													6	25					0	0	0.00116845	0	0
NGEF	25791	broad.mit.edu	37	2	233834931	233834931	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr2:233834931C>T	ENST00000264051.3	-	3	654	c.376G>A	c.(376-378)Gaa>Aaa	p.E126K		NM_019850.2	NP_062824.2	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	126	Regulatory region; modulates activity toward RHOA, RAC1 and CDC42 (By similarity).				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			central_nervous_system(4)|endometrium(8)|kidney(2)|large_intestine(3)|lung(10)|ovary(3)|pancreas(1)|skin(4)	35		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		TACCTCATTTCCTGGGCTCCT	0.498000													28	37					0	0	0.00106085	0	0
NEIL3	55247	broad.mit.edu	37	4	178281684	178281684	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr4:178281684C>T	ENST00000264596.3	+	9	1606	c.1488C>T	c.(1486-1488)ggC>ggT	p.G496G		NM_018248.2	NP_060718.2	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3 (E. coli)	496					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(14)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	29		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		TGACAGATGGCCCTCGTACCT	0.478000								Base excision repair (BER), DNA glycosylases					21	8					0	0	0.000586117	0	0
DMRT2	10655	broad.mit.edu	37	9	1056913	1056913	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr9:1056913G>A	ENST00000382251.3	+	5	1655	c.1326G>A	c.(1324-1326)acG>acA	p.T442T	DMRT2_ENST00000382255.3_3'UTR|DMRT2_ENST00000259622.6_3'UTR|DMRT2_ENST00000358146.2_Silent_p.T442T|DMRT2_ENST00000302441.6_Silent_p.T442T			Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor 2	442					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity	p.T442T(1)		large_intestine(1)|lung(1)|prostate(2)	4		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		TTGTTGACACGGACTCCCTGG	0.527000													80	15					0	0	0.000781405	0	0
OR9G4	283189	broad.mit.edu	37	11	56510999	56510999	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:56510999G>A	ENST00000302957.3	-	1	288	c.289C>T	c.(289-291)Ctg>Ttg	p.L97L		NM_001005284.1	NP_001005284.1	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G, member 4	97					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(1)|autonomic_ganglia(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(3)|stomach(1)|urinary_tract(1)	34						CAACTGGCCAGGATTTTGGGG	0.438000													52	83					0	0	0.000781405	0	0
TSHZ2	128553	broad.mit.edu	37	20	51871926	51871926	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr20:51871926C>T	ENST00000371497.5	+	2	2816	c.1929C>T	c.(1927-1929)gcC>gcT	p.A643A	TSHZ2_ENST00000603338.2_Silent_p.A640A|TSHZ2_ENST00000329613.6_Silent_p.A640A	NM_001193421.1|NM_173485.5	NP_001180350.1|NP_775756.3	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	643					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(2)|breast(4)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(16)|lung(38)|ovary(5)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	84			STAD - Stomach adenocarcinoma(23;0.1)			CTCCAGAAGCCAAAAAGACCG	0.557000													64	44					0	0	0.000781405	0	0
PELI2	57161	broad.mit.edu	37	14	56746398	56746398	+	Missense_Mutation	SNP	T	T	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr14:56746398T>G	ENST00000267460.4	+	3	498	c.212T>G	c.(211-213)aTc>aGc	p.I71S		NM_021255.2	NP_067078.1	Q9HAT8	PELI2_HUMAN	pellino E3 ubiquitin protein ligase family member 2	71					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			kidney(6)|large_intestine(3)|lung(11)|ovary(1)|skin(1)	22						tattaGGCTATCAGCTGCAAA	0.378000													33	35					0	0	0.00283554	0	0
PPP1R3A	5506	broad.mit.edu	37	7	113519545	113519545	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:113519545G>A	ENST00000284601.3	-	4	1670	c.1602C>T	c.(1600-1602)ttC>ttT	p.F534F		NM_002711.3	NP_002702.2	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory subunit 3A	534					glycogen metabolic process	integral to membrane				NS(2)|breast(8)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(14)|liver(1)|lung(43)|ovary(10)|pancreas(7)|prostate(3)|skin(15)|stomach(1)|upper_aerodigestive_tract(2)	121						AGATTGTTTGGAAATTTTTTC	0.373000													21	24					0	0	0.00121646	0	0
SLC35D3	340146	broad.mit.edu	37	6	137245645	137245645	+	Silent	SNP	C	C	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr6:137245645C>G	ENST00000331858.4	+	2	1227	c.1062C>G	c.(1060-1062)ggC>ggG	p.G354G		NM_001008783.1	NP_001008783.1	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	354					carbohydrate transport	integral to membrane		p.G354G(1)		central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)	13	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		CAGCAGGTGGCCCCGCTCAGG	0.652000													15	16					0	0	0.000308642	0	0
HMGCS2	3158	broad.mit.edu	37	1	120293428	120293428	+	Silent	SNP	G	G	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr1:120293428G>C	ENST00000369406.3	-	9	1573	c.1524C>G	c.(1522-1524)gtC>gtG	p.V508V	HMGCS2_ENST00000544913.2_Silent_p.V466V	NM_005518.3	NP_005509.1	P54868	HMCS2_HUMAN	3-hydroxy-3-methylglutaryl-CoA synthase 2 (mitochondrial)	508					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			NS(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(1)|lung(13)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	28	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		ACCACCTTTAGACGGGACGCC	0.537000													600	1624					0	0	0.000781405	0	0
FOXN2	3344	broad.mit.edu	37	2	48586205	48586205	+	Missense_Mutation	SNP	T	T	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr2:48586205T>C	ENST00000340553.3	+	4	818	c.557T>C	c.(556-558)tTa>tCa	p.L186S		NM_002158.3	NP_002149.2	P32314	FOXN2_HUMAN	forkhead box N2	186					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|skin(1)|urinary_tract(1)	13		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			AAAGGTTCCTTATGGTGTGTT	0.343000													13	19					0	0	0.000308642	0	0
USH1C	10083	broad.mit.edu	37	11	17547910	17547910	+	Missense_Mutation	SNP	G	G	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:17547910G>C	ENST00000005226.7	-	8	657	c.658C>G	c.(658-660)Cga>Gga	p.R220G	USH1C_ENST00000318024.4_Missense_Mutation_p.R220G|USH1C_ENST00000527720.1_Missense_Mutation_p.R189G|USH1C_ENST00000527020.1_Missense_Mutation_p.R220G	NM_153676.3	NP_710142.1	Q9Y6N9	USH1C_HUMAN	Usher syndrome 1C (autosomal recessive, severe)	220	PDZ 2.				equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(9)|lung(25)|ovary(1)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	48						CCAAGGCCTCGGGAGCCTACC	0.617000													9	5					0	0	0.000442599	0	0
INTS4	92105	broad.mit.edu	37	11	77614629	77614629	+	Missense_Mutation	SNP	A	A	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:77614629A>G	ENST00000534064.1	-	17	2088	c.2054T>C	c.(2053-2055)tTg>tCg	p.L685S	AAMDC_ENST00000532481.1_Intron|INTS4_ENST00000535943.1_Missense_Mutation_p.L60S	NM_033547.3	NP_291025.3	Q96HW7	INT4_HUMAN	integrator complex subunit 4	685					snRNA processing	integrator complex	protein binding	p.L685S(3)	INTS4/GAB2(2)	NS(2)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(4)|lung(9)|ovary(2)|prostate(5)|upper_aerodigestive_tract(1)	32	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			CTTCAAATACAAAGGGGCAGC	0.478000													3	43					0	0	6.4e-05	0	0
PTPRD	5789	broad.mit.edu	37	9	8486101	8486101	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr9:8486101C>T	ENST00000381196.4	-	25	3259	c.2716G>A	c.(2716-2718)Gag>Aag	p.E906K	PTPRD_ENST00000397611.3_Intron|PTPRD_ENST00000471274.1_5'UTR|PTPRD_ENST00000397617.3_Intron|PTPRD_ENST00000358503.5_Missense_Mutation_p.E884K|PTPRD_ENST00000486161.1_Intron|PTPRD_ENST00000360074.4_Missense_Mutation_p.E893K|PTPRD_ENST00000355233.5_Intron|PTPRD_ENST00000540109.1_Missense_Mutation_p.E906K|PTPRD_ENST00000356435.5_Missense_Mutation_p.E906K|PTPRD_ENST00000397606.3_Intron|PTPRD_ENST00000537002.1_Intron	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	906	Fibronectin type-III 6.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TTCACCATCTCCTCCCCAAAG	0.468000										TSP Lung(15;0.13)			23	6					0	0	0.00278032	0	0
TAS2R60	338398	broad.mit.edu	37	7	143141130	143141130	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:143141130C>T	ENST00000332690.1	+	1	585	c.585C>T	c.(583-585)ttC>ttT	p.F195F	EPHA1-AS1_ENST00000429289.1_RNA	NM_177437.1	NP_803186.1	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	195					sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			breast(1)|kidney(1)|large_intestine(2)|lung(17)|prostate(1)|skin(7)|urinary_tract(2)	31	Melanoma(164;0.172)					TCTATCTCTTCCCTCTAAAAA	0.423000													67	97					0	0	0.000781405	0	0
TRAPPC11	60684	broad.mit.edu	37	4	184607856	184607856	+	Silent	SNP	A	A	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr4:184607856A>T	ENST00000334690.6	+	18	2050	c.1848A>T	c.(1846-1848)ccA>ccT	p.P616P	TRAPPC11_ENST00000512476.1_Silent_p.P222P|TRAPPC11_ENST00000357207.4_Silent_p.P616P	NM_021942.5	NP_068761.4	Q7Z392	CD041_HUMAN	trafficking protein particle complex 11	616																	CTGATTGTCCACATCCCATTA	0.368000													84	184					0	0	0.000781405	0	0
PREX2	80243	broad.mit.edu	37	8	68972998	68972998	+	Silent	SNP	T	T	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr8:68972998T>C	ENST00000288368.4	+	11	1600	c.1323T>C	c.(1321-1323)aaT>aaC	p.N441N	PREX2_ENST00000529398.1_3'UTR	NM_024870.2|NM_025170.4	NP_079146.2|NP_079446.3	Q70Z35	PREX2_HUMAN	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 2	441	DEP 1.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			NS(6)|biliary_tract(1)|breast(4)|endometrium(11)|kidney(16)|large_intestine(25)|liver(4)|lung(57)|ovary(2)|pancreas(4)|prostate(3)|skin(42)|upper_aerodigestive_tract(1)|urinary_tract(2)	178						TATTAGAAAATGGAATCATTC	0.348000													13	67					0	0	0.00136819	0	0
BAGE2	85319	broad.mit.edu	37	21	11058349	11058349	+	RNA	SNP	T	T	G	rs209032		TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr21:11058349T>G	ENST00000470054.1	-	0	324									B melanoma antigen family, member 2															Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GAGAGAAATCTCTTTATAAAA	0.338000													6	89					0	0	0.00198382	0	0
PELP1	27043	broad.mit.edu	37	17	4575136	4575136	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr17:4575136G>A	ENST00000301396.4	-	16	3807	c.3582C>T	c.(3580-3582)ccC>ccT	p.P1194P	PELP1_ENST00000574876.1_Silent_p.P1050P|PELP1_ENST00000572293.1_Silent_p.P1100P|PELP1_ENST00000436683.2_Silent_p.P826P|PELP1_ENST00000269230.7_Silent_p.P960P			Q8IZL8	PELP1_HUMAN	proline, glutamate and leucine rich protein 1	1050					transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	15						CAAGCTCCTGGGGAGGGGGCC	0.657000													15	33					0	0	0.000422831	0	0
ZNF536	9745	broad.mit.edu	37	19	30936347	30936347	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr19:30936347G>A	ENST00000355537.3	+	2	2025	c.1878G>A	c.(1876-1878)atG>atA	p.M626I		NM_014717.1	NP_055532.1	O15090	ZN536_HUMAN	zinc finger protein 536	626					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			NS(3)|breast(6)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|lung(119)|ovary(7)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(3)	182	Esophageal squamous(110;0.0834)					CTGGGAACATGAAGGAGAAGC	0.597000													58	102					0	0	0.000781405	0	0
CNTN5	53942	broad.mit.edu	37	11	100126527	100126527	+	Missense_Mutation	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr11:100126527G>A	ENST00000524871.1	+	17	2331	c.2041G>A	c.(2041-2043)Gaa>Aaa	p.E681K	CNTN5_ENST00000524560.1_3'UTR|CNTN5_ENST00000527185.1_Missense_Mutation_p.E681K|CNTN5_ENST00000528682.1_Missense_Mutation_p.E681K|CNTN5_ENST00000418526.2_Missense_Mutation_p.E607K|CNTN5_ENST00000279463.3_Missense_Mutation_p.E681K	NM_014361.3	NP_055176.1	O94779	CNTN5_HUMAN	contactin 5	681	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(12)|lung(38)|ovary(2)|pancreas(2)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	81		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AATTGTTGAGGAAATAACCGA	0.478000													44	14					0	0	0.000781405	0	0
EEF1D	1936	broad.mit.edu	37	8	144671200	144671200	+	Missense_Mutation	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr8:144671200C>T	ENST00000532741.1	-	1	1430	c.1202G>A	c.(1201-1203)gGt>gAt	p.G401D	EEF1D_ENST00000395119.3_Intron|EEF1D_ENST00000526838.1_Intron|EEF1D_ENST00000532400.1_Intron|EEF1D_ENST00000419152.2_Intron|EEF1D_ENST00000524624.1_Intron|EEF1D_ENST00000423316.2_Missense_Mutation_p.G351D|EEF1D_ENST00000528610.1_Intron|EEF1D_ENST00000529272.1_Intron|EEF1D_ENST00000442189.2_Missense_Mutation_p.G351D|EEF1D_ENST00000317198.6_Intron|EEF1D_ENST00000531621.1_Intron			P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)	0					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			breast(2)|cervix(1)|endometrium(1)|kidney(4)|lung(2)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			AGACCGAGGACCGGGTCGGTG	0.692000													10	46					0	0	0.000442599	0	0
LLGL2	3993	broad.mit.edu	37	17	73567827	73567827	+	Silent	SNP	C	C	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr17:73567827C>T	ENST00000392550.3	+	18	2373	c.2256C>T	c.(2254-2256)gcC>gcT	p.A752A	LLGL2_ENST00000577200.1_Silent_p.A752A|LLGL2_ENST00000167462.5_Silent_p.A752A	NM_001031803.1	NP_001026973.1	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 (Drosophila)	752					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			NS(1)|breast(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	31	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			TGCCTCCCGCCGAGCGGAGAA	0.682000													26	8					0	0	0.000878237	0	0
VARS	7407	broad.mit.edu	37	6	31759398	31759398	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr6:31759398G>A	ENST00000375663.3	-	8	1529	c.1089C>T	c.(1087-1089)tcC>tcT	p.S363S	VARS_ENST00000444930.2_Silent_p.S68S	NM_006295.2	NP_006286.1	P26640	SYVC_HUMAN	valyl-tRNA synthetase	363					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(18)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	30					L-Valine(DB00161)	ATCGAGTCAGGGAGTCCTGGA	0.592000													96	180					0	0	0.000781405	0	0
TCF3	6929	broad.mit.edu	37	19	1632113	1632113	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr19:1632113G>A	ENST00000262965.5	-	5	566	c.222C>T	c.(220-222)acC>acT	p.T74T	TCF3_ENST00000395423.3_Intron|TCF3_ENST00000344749.5_Silent_p.T74T|TCF3_ENST00000588136.1_Silent_p.T74T	NM_003200.3	NP_003191.1	P15923	TFE2_HUMAN	transcription factor 3	74				FDPSRTFSEGTHFTESHSSLSSSTFLGPGLG -> GGGECL AWCGPSAVHRCADVGLGMVSARTAP (in Ref. 6; CAA36297).	B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			breast(2)|central_nervous_system(1)|kidney(2)|large_intestine(2)|lung(6)|ovary(1)|skin(2)	16		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCGCTGAAGGTCTAGGGGA	0.637000			T	"""PBX1, HLF, TFPT"""	pre B-ALL								6	16					0	0	0.000157383	0	0
PROL1	58503	broad.mit.edu	37	4	71275127	71275127	+	Missense_Mutation	SNP	C	C	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr4:71275127C>G	ENST00000399575.2	+	3	256	c.82C>G	c.(82-84)Cca>Gca	p.P28A	PROL1_ENST00000514338.1_3'UTR	NM_021225.4	NP_067048.4	Q99935	PROL1_HUMAN	proline rich, lacrimal 1	28	Pro-rich.				regulation of sensory perception of pain	extracellular region	endopeptidase inhibitor activity			endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|prostate(1)|skin(3)	15		all_hematologic(202;0.196)				CTCCAGAAGACCATATCTACC	0.428000													31	12					0	0	0.001512	0	0
NKTR	4820	broad.mit.edu	37	3	42679557	42679557	+	Missense_Mutation	SNP	A	A	C			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr3:42679557A>C	ENST00000232978.8	+	13	2549	c.2361A>C	c.(2359-2361)aaA>aaC	p.K787N	RP4-613B23.1_ENST00000438017.1_RNA|RP4-613B23.1_ENST00000445452.1_RNA|RP4-613B23.1_ENST00000434363.1_RNA	NM_005385.3	NP_005376.2	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence	787	Arg/Ser-rich.				protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			breast(3)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(10)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	41				KIRC - Kidney renal clear cell carcinoma(284;0.24)		AATATGTCAAAGGTAGAGACA	0.408000													41	49					0	0	0.00195071	0	0
RGPD4	285190	broad.mit.edu	37	2	108477279	108477279	+	Missense_Mutation	SNP	T	T	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr2:108477279T>A	ENST00000408999.3	+	13	1893	c.1816T>A	c.(1816-1818)Tat>Aat	p.Y606N	RGPD4_ENST00000354986.4_Missense_Mutation_p.Y606N	NM_182588.2	NP_872394.2	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	606					intracellular transport		binding			breast(1)|endometrium(7)|kidney(4)|lung(23)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(3)	43						AAGTGTTCATTATTGGAAGAA	0.323000													58	81					0	0	0.000781405	0	0
LRIT2	340745	broad.mit.edu	37	10	85981769	85981769	+	Silent	SNP	G	G	A			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr10:85981769G>A	ENST00000372113.4	-	3	1565	c.1560C>T	c.(1558-1560)tcC>tcT	p.S520S	LRIT2_ENST00000538192.1_Silent_p.S530S	NM_001017924.2	NP_001017924.1	A6NDA9	LRIT2_HUMAN	leucine-rich repeat, immunoglobulin-like and transmembrane domains 2	520						integral to membrane				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(13)|ovary(3)|prostate(6)|urinary_tract(1)	32						GTTCTCTAAAGGAGCCATCCT	0.597000													65	25					0	0	0.000781405	0	0
SRGAP2B	647135	broad.mit.edu	37	1	144043905	144043906	+	RNA	INS	-	-	G			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr1:144043905_144043906insG	ENST00000467933.1	+	0	1108																											tcgctcacgctggagctgtaga	0.535													8	5	---	---	---	---					
POLR2J4	84820	broad.mit.edu	37	7	44056176	44056177	+	RNA	DEL	CT	CT	-			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr7:44056176_44056177delCT	ENST00000427076.1	-	0	89					NR_003655.2																						TCCTCCCACCCTGAGTCTAAAC	0.559													11	38	---	---	---	---					
ATAD2	29028	broad.mit.edu	37	8	124384892	124384893	+	Frame_Shift_Ins	INS	-	-	T			TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr8:124384892_124384893insT	ENST00000287394.5	-	3	461_462	c.354_355insA	c.(352-357)aaaagafs	p.R119fs	ATAD2_ENST00000521903.1_5'UTR	NM_014109.3	NP_054828.2	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity	p.E119fs*8(1)		breast(3)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(12)|lung(16)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	48	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CTGTGCTCTTCTTTTTTTTTAT	0.267													7	215	---	---	---	---					
KRTAP10-6	386674	broad.mit.edu	37	21	46012219	46012220	+	In_Frame_Ins	INS	-	-	GGGGCGCAGCAGCTG	rs71199613		TCGA-ER-A19L-06A-12D-A197-08	TCGA-ER-A19L-10A-01D-A199-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8d5ffe62-6dd9-4764-b0b7-5e3010eefe6d	338df758-f109-4331-8d51-b3ee0eab4229	g.chr21:46012219_46012220insGGGGCGCAGCAGCTG	ENST00000400368.1	-	1	166_167	c.146_147insCAGCTGCTGCGCCCC	c.(145-147)cgc>cCAGCTGCTGCGCCCCgc	p.48_49insPAAAP	TSPEAR_ENST00000323084.4_Intron	NM_198688.2	NP_941961.2	P60371	KR106_HUMAN	keratin associated protein 10-6	48	29 X 5 AA repeats of C-C-X(3).					keratin filament				endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(6)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23						GGCAGGGGGCCGGGGCGCAGCA	0.688													9	51	---	---	---	---					
