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
GLYAT	10249	broad.mit.edu	37	11	58480360	58480360	+	Splice_Site	SNP	C	C	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr11:58480360C>A	ENST00000344743.3	-	4	331		c.e4-1		GLYAT_ENST00000278400.3_Splice_Site|GLYAT_ENST00000529732.1_Splice_Site	NM_201648.2	NP_964011.2	Q6IB77	GLYAT_HUMAN	glycine-N-acyltransferase						acyl-CoA metabolic process|response to toxin|xenobiotic metabolic process	mitochondrial matrix	glycine N-acyltransferase activity|glycine N-benzoyltransferase activity			NS(1)|autonomic_ganglia(1)|kidney(1)|large_intestine(3)|lung(8)|skin(1)|urinary_tract(1)	16		Breast(21;0.0044)|all_epithelial(135;0.0157)			Glycine(DB00145)	CTGTCATATCCTGTTATCATT	0.303000													13	54					5.50884e-06	5.75924e-06	1	1	0
SNHG14	0	broad.mit.edu	37	15	25310215	25310215	+	RNA	SNP	G	G	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr15:25310215G>T	ENST00000549804.2	+	0	538				SNORD116-6_ENST00000384711.1_RNA|SNHG14_ENST00000551077.1_RNA																							CCTTGGAAAAGCTGAACAAAA	0.473000													7	400					0.000274275	0.000282462	1	1	0
MEIS2	4212	broad.mit.edu	37	15	37329146	37329146	+	Missense_Mutation	SNP	T	T	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr15:37329146T>G	ENST00000338564.5	-	9	1215	c.769A>C	c.(769-771)Aac>Cac	p.N257H	MEIS2_ENST00000424352.2_Missense_Mutation_p.N257H|MEIS2_ENST00000444725.1_Missense_Mutation_p.N257H|MEIS2_ENST00000382766.2_Missense_Mutation_p.N257H|MEIS2_ENST00000561208.1_Missense_Mutation_p.N257H|MEIS2_ENST00000340545.5_Missense_Mutation_p.N244H|MEIS2_ENST00000559561.1_Missense_Mutation_p.N257H|MEIS2_ENST00000397620.2_Missense_Mutation_p.N169H|MEIS2_ENST00000557796.2_Missense_Mutation_p.N244H|MEIS2_ENST00000219869.9_Missense_Mutation_p.N111H|MEIS2_ENST00000397624.3_Missense_Mutation_p.N169H|MEIS2_ENST00000559085.1_Missense_Mutation_p.N244H	NM_001220482.1	NP_001207411.1	O14770	MEIS2_HUMAN	Meis homeobox 2	257	Asp/Glu-rich (acidic).				negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(7)|lung(17)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	36		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		GCTACACTGTTGTCTAAACCA	0.408000													57	80					0	0	1	0	0
POM121L9P	0	broad.mit.edu	37	22	24659593	24659593	+	RNA	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr22:24659593C>T	ENST00000414583.2	+	0	3118					NR_003714.1																						TCACTGACATCGAAGGCTGCC	0.632000													3	18					0	0	1	0	0
GRIK2	2898	broad.mit.edu	37	6	101847197	101847197	+	Missense_Mutation	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr6:101847197G>A	ENST00000369138.1	+	1	534	c.44G>A	c.(43-45)cGc>cAc	p.R15H	GRIK2_ENST00000413795.1_Missense_Mutation_p.R15H|GRIK2_ENST00000358361.3_Missense_Mutation_p.R15H|GRIK2_ENST00000421544.1_Missense_Mutation_p.R15H|GRIK2_ENST00000318991.6_Missense_Mutation_p.R15H|GRIK2_ENST00000369137.3_Missense_Mutation_p.R15H	NM_001166247.1	NP_001159719.1	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	15					glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			NS(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(37)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	83		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GTCTTCAGGCGCACCGTTAAA	0.473000													4	244					0	0	1	0	0
OR10R2	343406	broad.mit.edu	37	1	158450564	158450564	+	Silent	SNP	G	G	A	rs146808200		TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr1:158450564G>A	ENST00000368152.1	+	1	897	c.897G>A	c.(895-897)acG>acA	p.T299T	RP11-144L1.4_ENST00000419738.1_RNA|RP11-144L1.4_ENST00000426251.1_RNA	NM_001004472.1	NP_001004472.1	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R, member 2	299					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|liver(1)|lung(26)|pancreas(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	41	all_hematologic(112;0.0378)					TGACATACACGATTGTCACTC	0.433000													26	41					0	0	1	0	0
SCARF2	0	broad.mit.edu	37	22	20783912	20783912	+	Silent	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr22:20783912G>A	ENST00000405555.3	-	8	1405	c.1335C>T	c.(1333-1335)ggC>ggT	p.G445G	SCARF2_ENST00000266214.5_Silent_p.G445G	NM_182895.2	NP_878315.1	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2	445					cell adhesion	integral to membrane	protein binding|receptor activity			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|skin(2)	10	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GCGCGCCCGCGCCCATCACGC	0.677000													8	76					0	0	1	0	0
NLRP5	126206	broad.mit.edu	37	19	56538685	56538685	+	Silent	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:56538685C>T	ENST00000390649.3	+	7	1086	c.1086C>T	c.(1084-1086)gaC>gaT	p.D362D		NM_153447.4	NP_703148.4	P59047	NALP5_HUMAN	NLR family, pyrin domain containing 5	362	NACHT.					mitochondrion|nucleolus	ATP binding			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|ovary(5)|skin(2)|stomach(4)|upper_aerodigestive_tract(2)	25		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TCATCATTGACGGTTTCGATG	0.547000													12	17					0	0	1	0	0
EIF4E	1977	broad.mit.edu	37	4	99812468	99812468	+	Missense_Mutation	SNP	A	A	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr4:99812468A>C	ENST00000450253.2	-	3	1665	c.141T>G	c.(139-141)ttT>ttG	p.F47L	EIF4E_ENST00000504432.1_Missense_Mutation_p.F75L|EIF4E_ENST00000280892.6_Missense_Mutation_p.F67L|EIF4E_ENST00000505992.1_Missense_Mutation_p.F47L	NM_001968.3	NP_001959.1	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	47					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|skin(1)	13				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		CATTTTTAAAAAACCAgagtg	0.343000													30	33					0	0	1	0	0
GTF2IRD2P1	0	broad.mit.edu	37	7	72664015	72664015	+	RNA	SNP	C	C	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr7:72664015C>G	ENST00000425256.1	-	0	885					NR_002164.1																						ATACCACCCCCGGGGCATGCC	0.507000													3	15					0	0	1	0	0
POLE	5426	broad.mit.edu	37	12	133220429	133220429	+	Missense_Mutation	SNP	C	C	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr12:133220429C>G	ENST00000320574.5	-	33	4327	c.4284G>C	c.(4282-4284)gaG>gaC	p.E1428D	POLE_ENST00000535270.1_Missense_Mutation_p.E1401D	NM_006231.2	NP_006222.2	Q07864	DPOE1_HUMAN	polymerase (DNA directed), epsilon, catalytic subunit	1428					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			NS(2)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(41)|ovary(3)|pancreas(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	89	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TCACCTGAGTCTCATATACGC	0.567000								DNA polymerases (catalytic subunits)					13	49					0	0	1	0	0
VPS13A	23230	broad.mit.edu	37	9	79959998	79959998	+	Missense_Mutation	SNP	G	G	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr9:79959998G>C	ENST00000360280.3	+	52	7489	c.7229G>C	c.(7228-7230)gGa>gCa	p.G2410A	VPS13A_ENST00000376634.4_Missense_Mutation_p.G2410A|VPS13A_ENST00000376636.3_Missense_Mutation_p.G2371A|VPS13A_ENST00000357409.5_Missense_Mutation_p.G2410A	NM_033305.2	NP_150648.2	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13 homolog A (S. cerevisiae)	2410					Golgi to endosome transport|protein transport	intracellular	protein binding			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(28)|liver(1)|lung(42)|ovary(3)|pancreas(3)|prostate(3)|skin(9)|upper_aerodigestive_tract(1)|urinary_tract(1)	104						TATCATGATGGAGCAGCTACA	0.318000													15	108					0	0	1	0	0
SYNE2	23224	broad.mit.edu	37	14	64656884	64656884	+	Silent	SNP	A	A	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr14:64656884A>T	ENST00000357395.3	+	100	18266	c.7122A>T	c.(7120-7122)gcA>gcT	p.A2374A	SYNE2_ENST00000554584.1_Silent_p.A5852A|SYNE2_ENST00000555002.1_Silent_p.A2623A|ESR2_ENST00000542956.1_Intron|SYNE2_ENST00000394768.2_Silent_p.A2374A|SYNE2_ENST00000344113.4_Silent_p.A5989A|SYNE2_ENST00000358025.3_Silent_p.A5989A			Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5989					centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			NS(5)|breast(17)|central_nervous_system(3)|cervix(8)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(21)|large_intestine(34)|lung(75)|ovary(10)|pancreas(2)|prostate(8)|skin(8)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(4)	224				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AATCAAGAGCAGCTGAGATCG	0.398000													30	56					0	0	1	0	0
BCL11A	53335	broad.mit.edu	37	2	60687797	60687797	+	Silent	SNP	G	G	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr2:60687797G>T	ENST00000335712.6	-	4	2477	c.2250C>A	c.(2248-2250)gtC>gtA	p.V750V	BCL11A_ENST00000358510.4_Silent_p.V716V|BCL11A_ENST00000537768.1_Intron|BCL11A_ENST00000359629.5_Intron|BCL11A_ENST00000356842.4_Intron|BCL11A_ENST00000538214.1_Silent_p.V716V|BCL11A_ENST00000477659.1_5'UTR	NM_022893.3	NP_075044.2	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A (zinc finger protein)	750					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			NS(1)|breast(6)|central_nervous_system(6)|endometrium(4)|kidney(1)|large_intestine(8)|lung(25)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	59			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			AGTTCTTGAAGACTTTCCCAC	0.562000			T	IGH@	B-CLL								88	128					1.26458e-31	1.38502e-31	1	1	0
FRG1B	0	broad.mit.edu	37	20	29628263	29628263	+	Missense_Mutation	SNP	A	A	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr20:29628263A>G	ENST00000278882.3	+	6	645	c.265A>G	c.(265-267)Att>Gtt	p.I89V	FRG1B_ENST00000439954.2_Missense_Mutation_p.I94V|FRG1B_ENST00000358464.4_Missense_Mutation_p.I89V														p.I89V(4)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						TAGCTGCTTTATTAGATGCAA	0.363000													6	134					0	0	1	0	0
IGKV1-16	0	broad.mit.edu	37	2	89399378	89399378	+	RNA	SNP	A	A	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr2:89399378A>G	ENST00000479981.1	-	0	351																											TGTTGGCAGTAATAAGTTGCA	0.507000													66	124					0	0	1	0	0
CNTNAP4	85445	broad.mit.edu	37	16	76389360	76389360	+	Silent	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr16:76389360T>C	ENST00000307431.8	+	4	724	c.339T>C	c.(337-339)agT>agC	p.S113S	CNTNAP4_ENST00000478060.1_Silent_p.S89S|CNTNAP4_ENST00000476707.1_Silent_p.S117S|CNTNAP4_ENST00000377504.4_Silent_p.S113S|CNTNAP4_ENST00000469589.1_3'UTR	NM_033401.3	NP_207837.2	Q9C0A0	CNTP4_HUMAN	contactin associated protein-like 4	114	F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			breast(4)|central_nervous_system(1)|cervix(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(33)|ovary(2)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)	64						TGATGTTCAGTGATAGTGGCT	0.478000													46	67					0	0	1	0	0
LGI2	55203	broad.mit.edu	37	4	25005383	25005383	+	Missense_Mutation	SNP	G	G	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr4:25005383G>C	ENST00000382114.4	-	8	1513	c.1328C>G	c.(1327-1329)tCc>tGc	p.S443C		NM_018176.3	NP_060646.2	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	443						extracellular region				breast(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(15)|prostate(1)|skin(3)|stomach(2)	33		Breast(46;0.173)				CATGACCCGGGAGTCCCCGAT	0.532000													111	157					0	0	1	0	0
TMPO	7112	broad.mit.edu	37	12	98927085	98927085	+	Silent	SNP	A	A	G	rs147812883	byFrequency	TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr12:98927085A>G	ENST00000266732.4	+	4	1288	c.1050A>G	c.(1048-1050)caA>caG	p.Q350Q	TMPO_ENST00000261210.5_Intron|TMPO_ENST00000393053.2_Intron|TMPO_ENST00000343315.5_Intron|TMPO_ENST00000556029.1_Intron	NM_003276.2	NP_003267.1	P42167	LAP2B_HUMAN	thymopoietin	256	Binds lamins B.|NAKAP95-binding C.|Nucleoplasmic (Potential).					integral to membrane|nuclear inner membrane	DNA binding|lamin binding			breast(2)|endometrium(1)|large_intestine(4)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						TTTCAGATCAATCGCCTCTCT	0.418000													6	87					0	0	1	0	0
LL22NC03-80A10.6	0	broad.mit.edu	37	22	22664141	22664141	+	RNA	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr22:22664141G>A	ENST00000426066.1	+	0	664					NR_027293.1																						AAATTTGAAGGTGCTGTGATT	0.448000													5	76					0	0	1	0	0
OR4P4	81300	broad.mit.edu	37	11	55405900	55405900	+	Missense_Mutation	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr11:55405900G>A	ENST00000314612.2	+	1	67	c.67G>A	c.(67-69)Gtc>Atc	p.V23I		NM_001004124.1	NP_001004124.1	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P, member 4	23					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			autonomic_ganglia(1)|central_nervous_system(1)|kidney(4)|large_intestine(4)|lung(28)|ovary(1)|upper_aerodigestive_tract(1)	40						GAACATTGAAGTCCTCTGCTT	0.363000													56	100					0	0	1	0	0
PRSS21	10942	broad.mit.edu	37	16	2871093	2871093	+	Missense_Mutation	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr16:2871093G>A	ENST00000455114.1	+	5	788	c.682G>A	c.(682-684)Ggg>Agg	p.G228R	PRSS21_ENST00000450020.3_Intron|PRSS21_ENST00000575739.1_Intron|PRSS21_ENST00000005995.3_Missense_Mutation_p.G230R	NM_001270452.1|NM_006799.3|NM_144956.2	NP_001257381.1|NP_006790.1|NP_659205.1	Q9Y6M0	TEST_HUMAN	protease, serine, 21 (testisin)	230	Peptidase S1.				proteolysis	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	serine-type endopeptidase activity			breast(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|skin(2)	15						TGCCCAAGGCGGGAAGGATGC	0.542000													88	142					0	0	1	0	0
TRBV5-4	0	broad.mit.edu	37	7	142168890	142168890	+	RNA	SNP	C	C	T	rs143671051	by1000genomes	TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr7:142168890C>T	ENST00000454561.2	-	0	155																											GGGCTTGGTCCTCCTGGGGAA	0.592000													6	24					0	0	1	0	0
CDH16	1014	broad.mit.edu	37	16	66945164	66945164	+	Silent	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr16:66945164C>T	ENST00000299752.4	-	14	2038	c.1845G>A	c.(1843-1845)ggG>ggA	p.G615G	CDH16_ENST00000565796.1_Silent_p.G615G|CDH16_ENST00000394055.3_Silent_p.G615G|CDH16_ENST00000568632.1_Silent_p.G518G|CDH16_ENST00000570262.1_Silent_p.G535G	NM_001204744.1|NM_001204745.1|NM_004062.3	NP_001191673.1|NP_001191674.1|NP_004053.1	O75309	CAD16_HUMAN	cadherin 16, KSP-cadherin	615	Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			endometrium(1)|kidney(3)|large_intestine(10)|lung(15)|ovary(2)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	41		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		TGTGCACCTCCCCGGAGAATT	0.602000													12	15					0	0	1	0	0
GLTSCR2	29997	broad.mit.edu	37	19	48248903	48248903	+	Silent	SNP	G	G	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:48248903G>T	ENST00000246802.5	+	1	125	c.87G>T	c.(85-87)tcG>tcT	p.S29S	GLTSCR2_ENST00000598681.1_3'UTR	NM_015710.4	NP_056525.2	Q9NZM5	GSCR2_HUMAN	glioma tumor suppressor candidate region gene 2	29						nucleolus				central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)	15		all_cancers(25;1.47e-06)|all_lung(116;6.89e-05)|all_epithelial(76;0.000108)|Lung NSC(112;0.000117)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000301)|OV - Ovarian serous cystadenocarcinoma(262;0.00031)|Epithelial(262;0.0149)|GBM - Glioblastoma multiforme(486;0.0278)		GGCCCACTTCGGTGGACCCAG	0.657000													42	69					3.77016e-25	4.0647e-25	1	1	0
B3GNT2	10678	broad.mit.edu	37	2	62449961	62449961	+	Missense_Mutation	SNP	T	T	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr2:62449961T>A	ENST00000301998.4	+	2	858	c.606T>A	c.(604-606)agT>agA	p.S202R	B3GNT2_ENST00000405767.1_Missense_Mutation_p.S202R	NM_006577.5	NP_006568.2	Q9NY97	B3GN2_HUMAN	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	202						Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|pancreas(1)	18	Lung NSC(7;0.031)|all_lung(7;0.0634)		LUSC - Lung squamous cell carcinoma(7;3.55e-06)|Epithelial(17;0.0963)			AATTTGAGAGTGAGAAGCACC	0.507000													30	68					0	0	1	0	0
RPL23AP7	0	broad.mit.edu	37	2	114369647	114369647	+	RNA	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr2:114369647T>C	ENST00000416673.2	-	0	509					NR_000029.3																						CTTCTGAGGCTATCTGGGCTG	0.537000													56	94					0	0	1	0	0
TRAF3IP2	10758	broad.mit.edu	37	6	111912849	111912849	+	Silent	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr6:111912849C>T	ENST00000368761.5	-	2	919	c.441G>A	c.(439-441)gcG>gcA	p.A147A	TRAF3IP2_ENST00000392556.4_5'UTR|TRAF3IP2_ENST00000340026.6_Silent_p.A156A|TRAF3IP2-AS1_ENST00000532353.1_RNA|TRAF3IP2_ENST00000359831.4_Silent_p.A147A	NM_001164281.2|NM_147686.3	NP_001157753.1|NP_679211.2	O43734	CIKS_HUMAN	TRAF3 interacting protein 2	156					intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(3)|lung(5)|ovary(2)|prostate(1)|urinary_tract(1)	18		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		CAGGAGAAGCCGCTGAAAGCT	0.522000													8	88					0	0	1	0	0
DDX54	79039	broad.mit.edu	37	12	113599733	113599733	+	Silent	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr12:113599733G>A	ENST00000314045.7	-	18	2292	c.2265C>T	c.(2263-2265)agC>agT	p.S755S	DDX54_ENST00000306014.5_Silent_p.S755S	NM_001111322.1	NP_001104792.1	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	755					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity	p.S755R(1)		breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	31						TGTAGCGGCCGCTCTCTGTCT	0.592000													4	219					0	0	1	0	0
ZBTB18	10472	broad.mit.edu	37	1	244218427	244218427	+	Nonsense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr1:244218427C>T	ENST00000358704.4	+	2	1500	c.1351C>T	c.(1351-1353)Cag>Tag	p.Q451*		NM_001278196.1|NM_006352.4|NM_205768.2	NP_001265125.1|NP_006343.2|NP_991331.1			zinc finger and BTB domain containing 18																		CACATGCACCCAGTGCGGCAA	0.627000													4	81					0	0	1	0	0
SPAG17	200162	broad.mit.edu	37	1	118640423	118640423	+	Missense_Mutation	SNP	G	G	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr1:118640423G>C	ENST00000336338.5	-	7	946	c.881C>G	c.(880-882)aCt>aGt	p.T294S		NM_206996.2	NP_996879.1	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	294						cilium|flagellar axoneme|microtubule				NS(1)|biliary_tract(1)|breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(30)|liver(2)|lung(56)|ovary(3)|prostate(5)|skin(5)|upper_aerodigestive_tract(6)|urinary_tract(1)	123	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CTTCCAGAAAGTTTTAAGCTC	0.328000													22	31					0	0	1	0	0
ANAPC1	64682	broad.mit.edu	37	2	112596041	112596041	+	Missense_Mutation	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr2:112596041T>C	ENST00000341068.3	-	18	2861	c.2089A>G	c.(2089-2091)Agg>Ggg	p.R697G		NM_022662.3	NP_073153.1	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	697					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(7)|lung(16)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|urinary_tract(1)	49						TCGGAAGGCCTTGCTTTTTTG	0.343000													33	54					0	0	1	0	0
GATA3	2625	broad.mit.edu	37	10	8115720	8115720	+	Missense_Mutation	SNP	A	A	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr10:8115720A>G	ENST00000379328.3	+	6	1637	c.1069A>G	c.(1069-1071)Atg>Gtg	p.M357V	GATA3_ENST00000461472.1_3'UTR|GATA3_ENST00000346208.3_Missense_Mutation_p.M356V	NM_001002295.1|NM_002051.2	NP_001002295.1|NP_002042.1	P23771	GATA3_HUMAN	GATA binding protein 3	356					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding	p.M357fs*14(1)		NS(1)|breast(44)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(24)|ovary(3)|skin(2)	87						ACCCCTGACTATGAAGAAGGA	0.403000			"""F, N, S"""		breast		"""HDR syndrome (HYPOPARATHYROIDISM, SENSORINEURAL DEAFNESS, AND RENAL DISEASE)"""						8	35					0	0	1	0	0
GOPC	57120	broad.mit.edu	37	6	117894644	117894644	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr6:117894644C>T	ENST00000535237.1	-	5	1031	c.802G>A	c.(802-804)Gca>Aca	p.A268T	GOPC_ENST00000467125.1_5'UTR|GOPC_ENST00000052569.6_Missense_Mutation_p.A260T|GOPC_ENST00000368498.2_Missense_Mutation_p.A268T					golgi-associated PDZ and coiled-coil motif containing										GOPC/ROS1(14)	endometrium(1)|large_intestine(3)|lung(4)|ovary(1)	9		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		CCTGGTGGTGCTTGCATTGGT	0.433000			O	ROS1	glioblastoma								4	122					0	0	1	0	0
LRIG2	9860	broad.mit.edu	37	1	113657236	113657236	+	Silent	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr1:113657236C>T	ENST00000361127.4	+	15	2466	c.2268C>T	c.(2266-2268)gcC>gcT	p.A756A	LRIG2_ENST00000492207.1_3'UTR	NM_014813.1	NP_055628.1	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like domains 2	756	Ig-like C2-type 3.					cytoplasm|integral to membrane|plasma membrane				breast(1)|endometrium(2)|kidney(7)|large_intestine(3)|lung(10)|ovary(4)|prostate(2)|stomach(1)|urinary_tract(1)	31	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		TTGTAGATGCCGGGCTAGAAG	0.473000													4	144					0	0	1	0	0
RANGAP1	5905	broad.mit.edu	37	22	41650402	41650402	+	Silent	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr22:41650402C>T	ENST00000455915.2	-	10	2639	c.1170G>A	c.(1168-1170)gaG>gaA	p.E390E	RANGAP1_ENST00000356244.3_Silent_p.E390E|RANGAP1_ENST00000405486.1_Silent_p.E390E|RANGAP1_ENST00000407260.4_Silent_p.E335E			P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	390	Asp/Glu-rich (highly acidic).				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity	p.E390E(1)		breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						cctcctcctcctcttcttcct	0.562000													3	51					0	0	1	0	0
TP53	7157	broad.mit.edu	37	17	7577108	7577108	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr17:7577108C>T	ENST00000420246.2	-	8	962	c.830G>A	c.(829-831)tGt>tAt	p.C277Y	TP53_ENST00000269305.4_Missense_Mutation_p.C277Y|TP53_ENST00000413465.2_Intron|TP53_ENST00000445888.2_Missense_Mutation_p.C277Y|TP53_ENST00000359597.4_Missense_Mutation_p.C277Y|TP53_ENST00000455263.2_Missense_Mutation_p.C277Y	NM_001126114.2|NM_001276696.1	NP_001119586.1|NP_001263625.1	P04637	P53_HUMAN	tumor protein p53	277	Interaction with AXIN1 (By similarity).|Interaction with DNA.|Interaction with E4F1.|Interaction with HIPK1 (By similarity).		C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in an osteosarcoma with no family history; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C277F(24)|p.C277Y(15)|p.0?(8)|p.?(2)|p.A276_R283delACPGRDRR(1)|p.C275fs*20(1)|p.A276fs*64(1)|p.L265_K305del41(1)|p.A276_C277delAC(1)|p.F270_D281del12(1)|p.V274_P278del(1)|p.S269fs*21(1)|p.C275fs*67(1)|p.C277S(1)|p.V272_K292del21(1)|p.C275_R283delCACPGRDRR(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCTCCCAGGACAGGCACAAAC	0.547000		111	"""Mis, N, F"""		"""breast, colorectal, lung, sarcoma, adrenocortical, glioma, multiple other tumour types"""	"""breast, sarcoma, adrenocortical carcinoma, glioma, multiple other tumour types"""		Other conserved DNA damage response genes	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, Familial Clustering of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	14					0	0	1	0	0
RIMKLA	284716	broad.mit.edu	37	1	42870214	42870214	+	Missense_Mutation	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr1:42870214G>A	ENST00000431473.3	+	3	556	c.427G>A	c.(427-429)Gaa>Aaa	p.E143K		NM_173642.3	NP_775913.2	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family member A	143	ATP-grasp.				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding			NS(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	13						AATGATTGATGAAGCTGAGCC	0.567000													29	46					0	0	1	0	0
ZNF814	730051	broad.mit.edu	37	19	58385546	58385546	+	Missense_Mutation	SNP	G	G	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:58385546G>T	ENST00000435989.2	-	3	1446	c.1212C>A	c.(1210-1212)gaC>gaA	p.D404E	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597832.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	404					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding	p.D404E(10)		NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						AATGTTTTTTGTCAGTGTGAA	0.393000													5	15					0.00116845	0.00118563	1	1	0
USHBP1	83878	broad.mit.edu	37	19	17373549	17373549	+	Missense_Mutation	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:17373549T>C	ENST00000252597.3	-	4	627	c.454A>G	c.(454-456)Aca>Gca	p.T152A	USHBP1_ENST00000431146.2_Missense_Mutation_p.T88A|USHBP1_ENST00000598570.1_5'UTR	NM_031941.3	NP_114147.2	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	152							PDZ domain binding			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(10)|liver(1)|lung(12)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	44						CCTTCGCTTGTGCCTTCGAAC	0.672000													34	77					0	0	1	0	0
ABCB5	340273	broad.mit.edu	37	7	20766690	20766690	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr7:20766690C>T	ENST00000404938.2	+	22	3305	c.2653C>T	c.(2653-2655)Cgt>Tgt	p.R885C	ABCB5_ENST00000258738.6_Missense_Mutation_p.R440C	NM_001163941.1	NP_001157413.1	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 5	440					regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(11)|liver(1)|lung(37)|ovary(1)|pancreas(1)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)	77						GGAGAATATACGTACTATAGT	0.323000													5	49					0	0	1	0	0
TRBV5-4	0	broad.mit.edu	37	7	142168862	142168862	+	RNA	SNP	A	A	G	rs140095394	by1000genomes	TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr7:142168862A>G	ENST00000454561.2	-	0	183																											TGGGCCAGGCAGCACTGCACC	0.597000													6	27					0	0	1	0	0
TTC37	9652	broad.mit.edu	37	5	94805499	94805499	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr5:94805499C>T	ENST00000358746.2	-	41	4779	c.4481G>A	c.(4480-4482)cGc>cAc	p.R1494H		NM_014639.3	NP_055454.1	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	1494							binding			breast(2)|endometrium(6)|kidney(3)|large_intestine(13)|liver(1)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(1)	47						CCCCATTTTGCGTTTGAATTG	0.363000													32	73					0	0	1	0	0
TP53	7157	broad.mit.edu	37	17	7578508	7578508	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr17:7578508C>T	ENST00000420246.2	-	5	554	c.422G>A	c.(421-423)tGc>tAc	p.C141Y	TP53_ENST00000269305.4_Missense_Mutation_p.C141Y|TP53_ENST00000413465.2_Missense_Mutation_p.C141Y|TP53_ENST00000445888.2_Missense_Mutation_p.C141Y|TP53_ENST00000359597.4_Missense_Mutation_p.C141Y|TP53_ENST00000455263.2_Missense_Mutation_p.C141Y	NM_001126114.2|NM_001276696.1	NP_001119586.1|NP_001263625.1	P04637	P53_HUMAN	tumor protein p53	141	Interaction with AXIN1 (By similarity).|Interaction with HIPK1 (By similarity).|Required for interaction with FBXO42.		C -> A (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C141Y(79)|p.0?(8)|p.C9Y(5)|p.C48Y(5)|p.A138_P142delAKTCP(4)|p.C141F(4)|p.C141S(3)|p.N131fs*27(2)|p.C9S(1)|p.K139_C141>N(1)|p.L137_W146del10(1)|p.C141A(1)|p.A6_P10delAKTCP(1)|p.K139fs*4(1)|p.A45_P49delAKTCP(1)|p.T140fs*28(1)|p.A138_V143delAKTCPV(1)|p.C48S(1)|p.C141fs*5(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CTGCACAGGGCAGGTCTTGGC	0.572000		111	"""Mis, N, F"""		"""breast, colorectal, lung, sarcoma, adrenocortical, glioma, multiple other tumour types"""	"""breast, sarcoma, adrenocortical carcinoma, glioma, multiple other tumour types"""		Other conserved DNA damage response genes	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, Familial Clustering of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			29	28					0	0	1	0	0
AQP4	361	broad.mit.edu	37	18	24436242	24436242	+	Missense_Mutation	SNP	A	A	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr18:24436242A>G	ENST00000383168.4	-	5	1033	c.905T>C	c.(904-906)aTt>aCt	p.I302T	AQP4_ENST00000581374.1_Missense_Mutation_p.I280T|AQP4-AS1_ENST00000582605.1_RNA|AQP4_ENST00000440832.3_Missense_Mutation_p.I280T|AQP4-AS1_ENST00000579964.1_RNA	NM_001650.4|NM_004028.3	NP_001641.1|NP_004019.1	P55087	AQP4_HUMAN	aquaporin 4	302					cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity			kidney(2)|large_intestine(3)|lung(5)|skin(1)	11	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					GTCAACGTCAATCACATGCAC	0.498000													91	149					0	0	1	0	0
ATRX	546	broad.mit.edu	37	X	76814253	76814253	+	Nonsense_Mutation	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chrX:76814253G>A	ENST00000373344.5	-	29	6605	c.6391C>T	c.(6391-6393)Cga>Tga	p.R2131*	ATRX_ENST00000480283.1_5'UTR|ATRX_ENST00000395603.3_Nonsense_Mutation_p.R2093*	NM_000489.3	NP_000480.2	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	2131	Helicase C-terminal.		R -> Q (in MRXSHF1; originally reported as Juberg-Marsidi syndrome).		DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding	p.?(1)		bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145					Phosphatidylserine(DB00144)	ATAATTACTCGATTAGCAGCT	0.328000			"""Mis, F, N"""		"""Pancreatic neuroendocrine tumors, paediatric GBM"""		ATR-X (alpha thalassemia/mental retardation) syndrome						82	15					0	0	1	0	0
RCN3	57333	broad.mit.edu	37	19	50031744	50031744	+	Silent	SNP	A	A	G			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:50031744A>G	ENST00000270645.3	+	2	462	c.15A>G	c.(13-15)ccA>ccG	p.P5P		NM_020650.2	NP_065701.2	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	5						endoplasmic reticulum lumen	calcium ion binding|protein binding			endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	12		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		TGTGGCGACCATCAGTTCTGC	0.667000													145	173					0	0	1	0	0
DLK2	65989	broad.mit.edu	37	6	43418746	43418746	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr6:43418746C>T	ENST00000357338.3	-	6	1383	c.683G>A	c.(682-684)cGg>cAg	p.R228Q	DLK2_ENST00000414245.1_Missense_Mutation_p.R222Q|DLK2_ENST00000372485.1_Missense_Mutation_p.R222Q|DLK2_ENST00000372488.3_Missense_Mutation_p.R228Q	NM_206539.1	NP_996262.1	Q6UY11	DLK2_HUMAN	delta-like 2 homolog (Drosophila)	228	EGF-like 6; calcium-binding (Potential).					integral to membrane	calcium ion binding			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(1)|upper_aerodigestive_tract(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GACACGGTCCCGACAGCGGGC	0.627000													31	68					0	0	1	0	0
ZNF576	79177	broad.mit.edu	37	19	44103081	44103081	+	Missense_Mutation	SNP	G	G	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:44103081G>A	ENST00000336564.4	+	3	338	c.184G>A	c.(184-186)Gtg>Atg	p.V62M	SRRM5_ENST00000526798.1_Intron|ZNF576_ENST00000529930.1_Missense_Mutation_p.V62M|ZNF576_ENST00000391965.2_Missense_Mutation_p.V62M|ZNF576_ENST00000528387.1_Missense_Mutation_p.V62M|ZNF576_ENST00000525771.1_Missense_Mutation_p.V62M|SRRM5_ENST00000607544.1_Intron|ZNF576_ENST00000533118.1_Missense_Mutation_p.V62M	NM_001145347.1	NP_001138819.1	Q9H609	ZN576_HUMAN	zinc finger protein 576	62					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(1)|prostate(1)	2		Prostate(69;0.0199)				AGCGGACTTCGTGGCCCAGAA	0.647000													10	118					0	0	1	0	0
FSTL5	56884	broad.mit.edu	37	4	162402315	162402315	+	Missense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr4:162402315C>T	ENST00000306100.5	-	13	1901	c.1465G>A	c.(1465-1467)Gtc>Atc	p.V489I	FSTL5_ENST00000379164.4_Missense_Mutation_p.V488I|FSTL5_ENST00000536695.1_Missense_Mutation_p.V488I|FSTL5_ENST00000427802.2_Missense_Mutation_p.V479I	NM_001128427.2|NM_020116.4	NP_001121899.1|NP_064501.2	Q8N475	FSTL5_HUMAN	follistatin-like 5	489						extracellular region	calcium ion binding			central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(18)|lung(43)|ovary(4)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	91	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TTGGGACAGACTTCATCCTGT	0.358000													59	100					0	0	1	0	0
RP11-114H24.7	0	broad.mit.edu	37	15	78211548	78211548	+	RNA	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr15:78211548T>C	ENST00000565869.1	+	0	111				RP11-114H24.2_ENST00000567226.1_RNA																							CCACCTGGGATTGGAGCTTTC	0.562000													4	71					0	0	1	0	0
OR8K3	219473	broad.mit.edu	37	11	56086694	56086694	+	Missense_Mutation	SNP	G	G	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr11:56086694G>C	ENST00000312711.1	+	1	912	c.912G>C	c.(910-912)tgG>tgC	p.W304C		NM_001005202.1	NP_001005202.1	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K, member 3	304					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(2)|endometrium(3)|large_intestine(6)|liver(2)|lung(15)|ovary(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	40	Esophageal squamous(21;0.00448)					GAAGGACATGGAATAACTTAT	0.328000													16	39					0	0	1	0	0
C1orf172	126695	broad.mit.edu	37	1	27277235	27277235	+	Missense_Mutation	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr1:27277235T>C	ENST00000320567.5	-	3	1140	c.1052A>G	c.(1051-1053)cAg>cGg	p.Q351R		NM_152365.2	NP_689578.2	Q8NAX2	CA172_HUMAN	chromosome 1 open reading frame 172	351										NS(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	17		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.37e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.22e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		CTGGGAGATCTGCACTGTCAG	0.572000													9	75					0	0	1	0	0
CCDC116	164592	broad.mit.edu	37	22	21989105	21989105	+	Silent	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr22:21989105C>T	ENST00000292779.3	+	4	914	c.753C>T	c.(751-753)ggC>ggT	p.G251G		NM_152612.2	NP_689825.2	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	251										endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(2)|skin(5)	22	Colorectal(54;0.105)					CAAGCTCTGGCGTGCCTGAAG	0.572000													4	176					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr2:209113112C>T	ENST00000415913.1	-	4	776	c.395G>A	c.(394-396)cGt>cAt	p.R132H	IDH1_ENST00000446179.1_Missense_Mutation_p.R132H|IDH1_ENST00000345146.2_Missense_Mutation_p.R132H			O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132			R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).|R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2774)|p.R132L(59)|p.R132V(1)|p.G131_R132>VL(1)		NS(1)|autonomic_ganglia(2)|biliary_tract(24)|bone(237)|central_nervous_system(3764)|endometrium(3)|haematopoietic_and_lymphoid_tissue(794)|kidney(2)|large_intestine(7)|lung(7)|prostate(6)|skin(5)|soft_tissue(12)|thyroid(22)|urinary_tract(1)	4887				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma								38	54					0	0	1	0	0
TRIM51	84767	broad.mit.edu	37	11	55658975	55658975	+	Missense_Mutation	SNP	T	T	C			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr11:55658975T>C	ENST00000449290.2	+	7	1318	c.1226T>C	c.(1225-1227)gTa>gCa	p.V409A	TRIM51_ENST00000244891.3_Missense_Mutation_p.V266A	NM_032681.3	NP_116070.2	Q9BSJ1	SPRY5_HUMAN	tripartite motif-containing 51	409	B30.2/SPRY.					intracellular	zinc ion binding										ACCAGCACAGTAGGATTATTC	0.463000													48	70					0	0	1	0	0
LATS1	9113	broad.mit.edu	37	6	150005421	150005421	+	Nonsense_Mutation	SNP	C	C	T			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr6:150005421C>T	ENST00000543571.1	-	4	1351	c.804G>A	c.(802-804)tgG>tgA	p.W268*	LATS1_ENST00000392273.3_Nonsense_Mutation_p.W268*|LATS1_ENST00000253339.5_Nonsense_Mutation_p.W268*|LATS1_ENST00000542747.1_5'UTR	NM_004690.3	NP_004681.1	O95835	LATS1_HUMAN	large tumor suppressor kinase 1	268					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			central_nervous_system(1)|lung(5)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		AGTTTGGTTCCCATGAAGGGG	0.547000													70	98					0	0	1	0	0
RP11-3P17.4	0	broad.mit.edu	37	3	161146872	161146873	+	RNA	DEL	AT	AT	-			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr3:161146872_161146873delAT	ENST00000473595.1	+	0	1231					NR_102265.1																						TGGTGAAAAGATATATATATAT	0.342													7	30	---	---	---	---					
KCNN2	3781	broad.mit.edu	37	5	113698631	113698632	+	In_Frame_Ins	INS	-	-	GCC	rs34838882	by1000genomes	TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr5:113698631_113698632insGCC	ENST00000512097.3	+	2	1177_1178	c.159_160insGCC	c.(157-162)gcccgc>gcGCCccgc	p.53_54AR>APR	KCNN2_ENST00000264773.3_In_Frame_Ins_p.53_54AR>APR			Q9H2S1	KCNN2_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 2	53	Poly-Ala.					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			breast(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(21)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	45		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		CTGCAGCCGCTGCCGCCGCCGC	0.703													4	9	---	---	---	---					
ZSWIM8	23053	broad.mit.edu	37	10	75557164	75557165	+	Frame_Shift_Ins	INS	-	-	A			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr10:75557164_75557165insA	ENST00000604729.1	+	18	3760_3761	c.3463_3464insA	c.(3463-3465)aacfs	p.N1155fs	ZSWIM8_ENST00000605216.1_Frame_Shift_Ins_p.N1150fs|ZSWIM8_ENST00000604524.1_Frame_Shift_Ins_p.N1150fs|NDST2_ENST00000456638.1_5'UTR|ZSWIM8_ENST00000603114.1_Frame_Shift_Ins_p.N1117fs|ZSWIM8_ENST00000398706.2_Frame_Shift_Ins_p.N1155fs					zinc finger, SWIM-type containing 8																		CAGTGCCCCTGAAACAACATCG	0.559													40	38	---	---	---	---					
LHX5	64211	broad.mit.edu	37	12	113901233	113901233	+	Frame_Shift_Del	DEL	C	C	-			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr12:113901233delC	ENST00000261731.3	-	5	1544	c.971delG	c.(970-972)gafs	p.G324fs		NM_022363.2	NP_071758.1	Q9H2C1	LHX5_HUMAN	LIM homeobox 5	324						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(1)|endometrium(2)|large_intestine(1)|lung(4)|prostate(1)|skin(1)	10						TTCCAGCGCTCCCAGCGGCGT	0.731													2	4	---	---	---	---					
HERC2P2	0	broad.mit.edu	37	15	23299147	23299147	+	RNA	DEL	A	A	-			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr15:23299147delA	ENST00000560464.1	-	0	4510																											ACATTCAAAGAAAAAAAAAAA	0.313													6	9	---	---	---	---					
TBC1D3P2	0	broad.mit.edu	37	17	60347260	60347260	+	RNA	DEL	T	T	-	rs71816198		TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr17:60347260delT	ENST00000581291.1	-	0	581																				breast(2)|kidney(1)|lung(2)	5						CTCTGAATGATTTTTTTTTTT	0.448													6	11	---	---	---	---					
ZNF563	147837	broad.mit.edu	37	19	12430217	12430217	+	Frame_Shift_Del	DEL	A	A	-			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr19:12430217delA	ENST00000293725.5	-	4	827	c.622delT	c.(622-624)ggfs	p.W208fs	ZNF563_ENST00000595977.1_Intron	NM_145276.2	NP_660319.1	Q8TA94	ZN563_HUMAN	zinc finger protein 563	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20						AAACTGGGCCAAAAAAAAGCT	0.393													10	240	---	---	---	---					
ANKRD20A11P	0	broad.mit.edu	37	21	15333058	15333058	+	RNA	DEL	A	A	-			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chr21:15333058delA	ENST00000344693.5	-	0	736					NR_027270.1																						cccagaatacaacactcaaca	0.308													7	10	---	---	---	---					
NAP1L2	4674	broad.mit.edu	37	X	72433664	72433666	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-WY-A85D-01A-11D-A36O-08	TCGA-WY-A85D-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	577d0588-d7bf-4c36-bedf-48df83824fc0	4accff73-f2d9-4a7f-ac9f-54c1f1e62555	g.chrX:72433664_72433666delTCC	ENST00000373517.3	-	1	1018_1020	c.663_665delGGA	c.(661-666)gac>ga	p.ED221del	NAP1L2_ENST00000536638.1_In_Frame_Del_p.ED79del	NM_021963.3	NP_068798.1	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	221	Glu-rich (acidic).				nucleosome assembly	chromatin assembly complex				NS(1)|breast(2)|endometrium(2)|kidney(3)|large_intestine(6)|lung(12)|skin(3)	29	Renal(35;0.156)					CTCAATGTCGtcctcctcctcct	0.424													7	41	---	---	---	---