#version 2.4
## 
## Oncotator v1.8.0.0 | Flat File Reference hg19 | GENCODE v19 EFFECT | UniProt_AAxform 2014_12 | ClinVar 12.03.20 | ESP 6500SI-V2 | ORegAnno UCSC Track | dbSNP build 142 | CCLE_By_GP 09292010 | COSMIC v62_291112 | 1000gp3 20130502 | UniProt_AA 2014_12 | dbNSFP v2.4 | ESP 6500SI-V2 | COSMIC_FusionGenes v62_291112 | gencode_xref_refseq metadata_v19 | CCLE_By_Gene 09292010 | ACHILLES_Lineage_Results 110303 | CGC full_2012-03-15 | UniProt 2014_12 | HumanDNARepairGenes 20110905 | HGNC Sept172014 | COSMIC_Tissue 291112 | Familial_Cancer_Genes 20110905 | TUMORScape 20100104 | Ensembl ICGC MUCOPA | TCGAScape 110405 | MutSig Published Results 20110905 
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	i_1000gp3_AA	i_1000gp3_AC	i_1000gp3_AF	i_1000gp3_AFR_AF	i_1000gp3_AMR_AF	i_1000gp3_AN	i_1000gp3_CIEND	i_1000gp3_CIPOS	i_1000gp3_CS	i_1000gp3_DP	i_1000gp3_EAS_AF	i_1000gp3_END	i_1000gp3_EUR_AF	i_1000gp3_IMPRECISE	i_1000gp3_MC	i_1000gp3_MEINFO	i_1000gp3_MEND	i_1000gp3_MLEN	i_1000gp3_MSTART	i_1000gp3_NS	i_1000gp3_SAS_AF	i_1000gp3_SVLEN	i_1000gp3_SVTYPE	i_1000gp3_TSD	i_ACHILLES_Lineage_Results_Top_Genes	i_CGC_Cancer Germline Mut	i_CGC_Cancer Molecular Genetics	i_CGC_Cancer Somatic Mut	i_CGC_Cancer Syndrome	i_CGC_Chr	i_CGC_Chr Band	i_CGC_GeneID	i_CGC_Name	i_CGC_Other Germline Mut	i_CGC_Tissue Type	i_COSMIC_n_overlapping_mutations	i_COSMIC_overlapping_mutation_descriptions	i_COSMIC_overlapping_primary_sites	i_Chromosome_hg18	i_ClinVar_ASSEMBLY	i_ClinVar_HGMD_ID	i_ClinVar_SYM	i_ClinVar_TYPE	i_ClinVar_rs	i_ESP_AA	i_ESP_AAC	i_ESP_AA_AC	i_ESP_AA_AGE	i_ESP_AA_GTC	i_ESP_AvgAAsampleReadDepth	i_ESP_AvgEAsampleReadDepth	i_ESP_AvgSampleReadDepth	i_ESP_CA	i_ESP_CDP	i_ESP_CG	i_ESP_CP	i_ESP_Chromosome	i_ESP_DBSNP	i_ESP_DP	i_ESP_EA_AC	i_ESP_EA_AGE	i_ESP_EA_GTC	i_ESP_EXOME_CHIP	i_ESP_FG	i_ESP_GL	i_ESP_GM	i_ESP_GS	i_ESP_GTC	i_ESP_GTS	i_ESP_GWAS_PUBMED	i_ESP_MAF	i_ESP_PH	i_ESP_PP	i_ESP_Position	i_ESP_TAC	i_ESP_TotalAAsamplesCovered	i_ESP_TotalEAsamplesCovered	i_ESP_TotalSamplesCovered	i_End_position_hg18	i_Ensembl_so_accession	i_Ensembl_so_term	i_Entrez_Gene_Id	i_Familial_Cancer_Genes_Reference	i_Familial_Cancer_Genes_Synonym	i_HGNC_Accession Numbers	i_HGNC_CCDS IDs	i_HGNC_Chromosome	i_HGNC_Date Modified	i_HGNC_Date Name Changed	i_HGNC_Date Symbol Changed	i_HGNC_Ensembl Gene ID	i_HGNC_Ensembl ID(supplied by Ensembl)	i_HGNC_Enzyme IDs	i_HGNC_Gene family description	i_HGNC_HGNC ID	i_HGNC_Locus Group	i_HGNC_Locus Type	i_HGNC_Name Synonyms	i_HGNC_OMIM ID(supplied by NCBI)	i_HGNC_Previous Names	i_HGNC_Previous Symbols	i_HGNC_Primary IDs	i_HGNC_Pubmed IDs	i_HGNC_Record Type	i_HGNC_RefSeq(supplied by NCBI)	i_HGNC_Secondary IDs	i_HGNC_Status	i_HGNC_Synonyms	i_HGNC_UCSC ID(supplied by UCSC)	i_HGNC_UniProt ID(supplied by UniProt)	i_HGNC_VEGA IDs	i_HGVS_coding_DNA_change	i_HGVS_genomic_change	i_HGVS_protein_change	i_ORegAnno_bin	i_Start_position_hg18	i_UniProt_alt_uniprot_accessions	i_Variant_Classification	i_Variant_Type	i_annotation_transcript	i_build	i_ccds_id	i_dbNSFP_1000Gp1_AC	i_dbNSFP_1000Gp1_AF	i_dbNSFP_1000Gp1_AFR_AC	i_dbNSFP_1000Gp1_AFR_AF	i_dbNSFP_1000Gp1_AMR_AC	i_dbNSFP_1000Gp1_AMR_AF	i_dbNSFP_1000Gp1_ASN_AC	i_dbNSFP_1000Gp1_ASN_AF	i_dbNSFP_1000Gp1_EUR_AC	i_dbNSFP_1000Gp1_EUR_AF	i_dbNSFP_Ancestral_allele	i_dbNSFP_CADD_phred	i_dbNSFP_CADD_raw	i_dbNSFP_CADD_raw_rankscore	i_dbNSFP_ESP6500_AA_AF	i_dbNSFP_ESP6500_EA_AF	i_dbNSFP_Ensembl_geneid	i_dbNSFP_Ensembl_transcriptid	i_dbNSFP_FATHMM_pred	i_dbNSFP_FATHMM_rankscore	i_dbNSFP_FATHMM_score	i_dbNSFP_GERP++_NR	i_dbNSFP_GERP++_RS	i_dbNSFP_GERP++_RS_rankscore	i_dbNSFP_Interpro_domain	i_dbNSFP_LRT_Omega	i_dbNSFP_LRT_converted_rankscore	i_dbNSFP_LRT_pred	i_dbNSFP_LRT_score	i_dbNSFP_LR_pred	i_dbNSFP_LR_rankscore	i_dbNSFP_LR_score	i_dbNSFP_MutationAssessor_pred	i_dbNSFP_MutationAssessor_rankscore	i_dbNSFP_MutationAssessor_score	i_dbNSFP_MutationTaster_converted_rankscore	i_dbNSFP_MutationTaster_pred	i_dbNSFP_MutationTaster_score	i_dbNSFP_Polyphen2_HDIV_pred	i_dbNSFP_Polyphen2_HDIV_rankscore	i_dbNSFP_Polyphen2_HDIV_score	i_dbNSFP_Polyphen2_HVAR_pred	i_dbNSFP_Polyphen2_HVAR_rankscore	i_dbNSFP_Polyphen2_HVAR_score	i_dbNSFP_RadialSVM_pred	i_dbNSFP_RadialSVM_rankscore	i_dbNSFP_RadialSVM_score	i_dbNSFP_Reliability_index	i_dbNSFP_SIFT_converted_rankscore	i_dbNSFP_SIFT_pred	i_dbNSFP_SIFT_score	i_dbNSFP_SLR_test_statistic	i_dbNSFP_SiPhy_29way_logOdds	i_dbNSFP_SiPhy_29way_logOdds_rankscore	i_dbNSFP_SiPhy_29way_pi	i_dbNSFP_UniSNP_ids	i_dbNSFP_Uniprot_aapos	i_dbNSFP_Uniprot_acc	i_dbNSFP_Uniprot_id	i_dbNSFP_aaalt	i_dbNSFP_aapos	i_dbNSFP_aapos_FATHMM	i_dbNSFP_aapos_SIFT	i_dbNSFP_aaref	i_dbNSFP_cds_strand	i_dbNSFP_codonpos	i_dbNSFP_fold-degenerate	i_dbNSFP_genename	i_dbNSFP_hg18_pos(1-coor)	i_dbNSFP_phastCons100way_vertebrate	i_dbNSFP_phastCons100way_vertebrate_rankscore	i_dbNSFP_phastCons46way_placental	i_dbNSFP_phastCons46way_placental_rankscore	i_dbNSFP_phastCons46way_primate	i_dbNSFP_phastCons46way_primate_rankscore	i_dbNSFP_phyloP100way_vertebrate	i_dbNSFP_phyloP100way_vertebrate_rankscore	i_dbNSFP_phyloP46way_placental	i_dbNSFP_phyloP46way_placental_rankscore	i_dbNSFP_phyloP46way_primate	i_dbNSFP_phyloP46way_primate_rankscore	i_dbNSFP_refcodon	i_entrez_gene_id	i_gc_content_full	i_gencode_transcript_name	i_gencode_transcript_status	i_gencode_transcript_tags	i_gencode_transcript_type	i_gene_type	i_havana_transcript	i_refseq_mrna_id	i_secondary_variant_classification
PTCHD2	57540	broad.mit.edu	37	1	11561401	11561401	+	Missense_Mutation	SNP	C	C	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:11561401C>T	ENST00000294484.6	+	2	490	c.352C>T	c.(352-354)Cgt>Tgt	p.R118C	PTCHD2_ENST00000389575.3_Missense_Mutation_p.R118C	NM_020780.1	NP_065831.1	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	118					cholesterol homeostasis (GO:0042632)|regulation of lipid transport (GO:0032368)|smoothened signaling pathway (GO:0007224)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)	hedgehog receptor activity (GO:0008158)	p.R335C(1)		NS(3)|breast(2)|endometrium(9)|kidney(4)|large_intestine(5)|lung(34)|ovary(3)|pancreas(1)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	76	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GGCCTCACAGCGTTTCGACGC	0.592																																																1	Substitution - Missense(1)	ovary(1)	1											65.0	65.0	65.0					1																	11561401		2104	4217	6321	11483988	SO:0001583	missense	57540			AB037758	CCDS41247.1	1p36.22	2010-02-17			ENSG00000204624	ENSG00000204624			29251	protein-coding gene	gene with protein product		611251				15738394	Standard	NM_020780		Approved	KIAA1337, DISP3	uc001ash.4	Q9P2K9	OTTHUMG00000002074	ENST00000294484.6:c.352C>T	1.37:g.11561401C>T	ENSP00000294484:p.Arg118Cys		11483988	Q5VTU9|Q9UJD6	Missense_Mutation	SNP	ENST00000294484.6	37	CCDS41247.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.266555	0.80358	.	.	ENSG00000204624	ENST00000294484;ENST00000389575	T;T	0.25912	1.77;1.77	5.8	4.84	0.62591	.	0.000000	0.85682	D	0.000000	T	0.40222	0.1108	L	0.34521	1.04	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.19712	-1.0297	10	0.87932	D	0	-5.7102	14.7923	0.69851	0.1446:0.8554:0.0:0.0	.	118	Q9P2K9	PTHD2_HUMAN	C	118	ENSP00000294484:R118C;ENSP00000374226:R118C	ENSP00000294484:R118C	R	+	1	0	PTCHD2	11483988	1.000000	0.71417	1.000000	0.80357	0.796000	0.44982	4.348000	0.59379	2.735000	0.93741	0.655000	0.94253	CGT		0.592	PTCHD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000005770.2	XM_052561	
CRTC2	200186	broad.mit.edu	37	1	153921792	153921792	+	Silent	SNP	T	T	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	A	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:153921792T>A	ENST00000368633.1	-	12	1600	c.1473A>T	c.(1471-1473)ccA>ccT	p.P491P	CRTC2_ENST00000368630.3_Silent_p.P171P|DENND4B_ENST00000361217.4_5'Flank	NM_181715.2	NP_859066.1	Q53ET0	CRTC2_HUMAN	CREB regulated transcription coactivator 2	491					gluconeogenesis (GO:0006094)|glucose homeostasis (GO:0042593)|histone H3-K9 acetylation (GO:0043970)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homotetramerization (GO:0051289)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	cAMP response element binding protein binding (GO:0008140)	p.P491P(1)		NS(1)|breast(1)|cervix(2)|endometrium(4)|large_intestine(5)|lung(8)|ovary(3)|skin(1)|upper_aerodigestive_tract(2)	27	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GAACCAGACTTGGGGAGCTGT	0.572																																																1	Substitution - coding silent(1)	ovary(1)	1											57.0	60.0	59.0					1																	153921792		2203	4300	6503	152188416	SO:0001819	synonymous_variant	200186			AY360172	CCDS30875.1	1q21.3	2008-02-05			ENSG00000160741	ENSG00000160741			27301	protein-coding gene	gene with protein product		608972				14506290, 14536081	Standard	NM_181715		Approved	TORC2	uc021pab.1	Q53ET0	OTTHUMG00000037156	ENST00000368633.1:c.1473A>T	1.37:g.153921792T>A			152188416	Q6UUV8|Q7Z3X7|Q8N332	Silent	SNP	ENST00000368633.1	37	CCDS30875.1																																																																																				0.572	CRTC2-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090272.3	NM_181715	
SUCO	51430	broad.mit.edu	37	1	172520743	172520743	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:172520743G>A	ENST00000263688.3	+	2	373	c.154G>A	c.(154-156)Gaa>Aaa	p.E52K	SUCO_ENST00000608151.1_Missense_Mutation_p.E248K|SUCO_ENST00000367723.4_Missense_Mutation_p.E247K|SUCO_ENST00000610051.1_Missense_Mutation_p.E52K	NM_014283.3	NP_055098.1	Q9UBS9	SUCO_HUMAN	SUN domain containing ossification factor	52					multicellular organismal development (GO:0007275)|ossification (GO:0001503)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of osteoblast differentiation (GO:0045669)|regulation of bone remodeling (GO:0046850)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|rough endoplasmic reticulum (GO:0005791)		p.E52K(1)									ACTAGAAAATGAAGATGTACA	0.368																																																1	Substitution - Missense(1)	ovary(1)	1											85.0	83.0	84.0					1																	172520743		2203	4300	6503	170787366	SO:0001583	missense	51430			AF097535	CCDS1303.1, CCDS65726.1, CCDS65727.1, CCDS72984.1	1q24	2012-07-10	2012-07-10	2012-07-10	ENSG00000094975	ENSG00000094975			1240	protein-coding gene	gene with protein product	"""SUN-like protein 1"", ""osteopotentia"""		"""chromosome 1 open reading frame 9"""	C1orf9		10673381, 20440000	Standard	NM_001282750		Approved	CH1, SLP1, OPT	uc001giq.4	Q9UBS9	OTTHUMG00000034839	ENST00000263688.3:c.154G>A	1.37:g.172520743G>A	ENSP00000263688:p.Glu52Lys		170787366	B2RNU4|Q9BQB9|Q9BXQ2|Q9UL04	Missense_Mutation	SNP	ENST00000263688.3	37	CCDS1303.1	.	.	.	.	.	.	.	.	.	.	G	15.24	2.775901	0.49786	.	.	ENSG00000094975	ENST00000367723;ENST00000263688	.	.	.	5.69	3.8	0.43715	.	0.173923	0.40554	N	0.001076	T	0.34106	0.0886	L	0.32530	0.975	0.39238	D	0.963805	B;D;P;P	0.53885	0.001;0.963;0.953;0.9	B;P;P;P	0.50825	0.002;0.651;0.551;0.493	T	0.30149	-0.9988	9	0.66056	D	0.02	-7.2602	7.9261	0.29876	0.0859:0.1611:0.753:0.0	.	52;52;248;52	B4DYM4;B4DZJ3;Q5H945;Q9UBS9	.;.;.;OSPT_HUMAN	K	248;52	.	ENSP00000263688:E52K	E	+	1	0	C1orf9	170787366	1.000000	0.71417	1.000000	0.80357	0.175000	0.22909	4.340000	0.59328	0.737000	0.32582	-0.237000	0.12165	GAA		0.368	SUCO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084273.1	NM_016227	
TNR	7143	broad.mit.edu	37	1	175375513	175375513	+	Missense_Mutation	SNP	G	G	C	rs140600179	byFrequency	TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	C	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:175375513G>C	ENST00000367674.2	-	3	1046	c.338C>G	c.(337-339)aCc>aGc	p.T113S	TNR_ENST00000263525.2_Missense_Mutation_p.T113S			Q92752	TENR_HUMAN	tenascin R	113					associative learning (GO:0008306)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|locomotory exploration behavior (GO:0035641)|long-term synaptic potentiation (GO:0060291)|negative regulation of axon extension involved in regeneration (GO:0048692)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of synaptic transmission (GO:0050805)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of transmission of nerve impulse (GO:0051971)|synapse organization (GO:0050808)|telencephalon cell migration (GO:0022029)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane raft (GO:0045121)|nucleus (GO:0005634)|perineuronal net (GO:0072534)|proteinaceous extracellular matrix (GO:0005578)		p.T113S(1)		NS(3)|breast(7)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(29)|lung(98)|ovary(4)|pancreas(5)|prostate(4)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	177	Renal(580;0.146)					GTGTGTAAAGGTGACCTGGCT	0.587																																																1	Substitution - Missense(1)	ovary(1)	1											214.0	176.0	188.0					1																	175375513		2203	4300	6503	173642136	SO:0001583	missense	7143			X98085	CCDS1318.1	1q24	2013-02-11	2012-07-12		ENSG00000116147	ENSG00000116147		"""Fibrinogen C domain containing"", ""Fibronectin type III domain containing"""	11953	protein-coding gene	gene with protein product	"""restrictin"", ""janusin"""	601995				8626505, 8940128	Standard	NM_003285		Approved		uc009wwu.1	Q92752	OTTHUMG00000034876	ENST00000367674.2:c.338C>G	1.37:g.175375513G>C	ENSP00000356646:p.Thr113Ser		173642136	C9J563|Q15568|Q5R3G0	Missense_Mutation	SNP	ENST00000367674.2	37	CCDS1318.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.333290	0.81801	.	.	ENSG00000116147	ENST00000367674;ENST00000263525;ENST00000367673	T;T	0.30714	1.52;1.52	5.24	5.24	0.73138	.	0.000000	0.85682	D	0.000000	T	0.53818	0.1820	L	0.58101	1.795	0.51482	D	0.999923	D;D	0.76494	0.997;0.999	D;D	0.78314	0.97;0.991	T	0.55341	-0.8156	10	0.66056	D	0.02	.	18.4464	0.90685	0.0:0.0:1.0:0.0	.	113;113	B4DIX8;Q92752	.;TENR_HUMAN	S	113	ENSP00000356646:T113S;ENSP00000263525:T113S	ENSP00000263525:T113S	T	-	2	0	TNR	173642136	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.930000	0.87610	2.445000	0.82738	0.561000	0.74099	ACC		0.587	TNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084414.4	NM_003285	
TNR	7143	broad.mit.edu	37	1	175375818	175375818	+	Missense_Mutation	SNP	C	C	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:175375818C>A	ENST00000367674.2	-	3	741	c.33G>T	c.(31-33)aaG>aaT	p.K11N	TNR_ENST00000263525.2_Missense_Mutation_p.K11N			Q92752	TENR_HUMAN	tenascin R	11					associative learning (GO:0008306)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|locomotory exploration behavior (GO:0035641)|long-term synaptic potentiation (GO:0060291)|negative regulation of axon extension involved in regeneration (GO:0048692)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of synaptic transmission (GO:0050805)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of transmission of nerve impulse (GO:0051971)|synapse organization (GO:0050808)|telencephalon cell migration (GO:0022029)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane raft (GO:0045121)|nucleus (GO:0005634)|perineuronal net (GO:0072534)|proteinaceous extracellular matrix (GO:0005578)		p.K11N(1)		NS(3)|breast(7)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(29)|lung(98)|ovary(4)|pancreas(5)|prostate(4)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	177	Renal(580;0.146)					TGAGCATGTTCTTCAGAACCA	0.542																																																1	Substitution - Missense(1)	ovary(1)	1											153.0	138.0	143.0					1																	175375818		2203	4300	6503	173642441	SO:0001583	missense	7143			X98085	CCDS1318.1	1q24	2013-02-11	2012-07-12		ENSG00000116147	ENSG00000116147		"""Fibrinogen C domain containing"", ""Fibronectin type III domain containing"""	11953	protein-coding gene	gene with protein product	"""restrictin"", ""janusin"""	601995				8626505, 8940128	Standard	NM_003285		Approved		uc009wwu.1	Q92752	OTTHUMG00000034876	ENST00000367674.2:c.33G>T	1.37:g.175375818C>A	ENSP00000356646:p.Lys11Asn		173642441	C9J563|Q15568|Q5R3G0	Missense_Mutation	SNP	ENST00000367674.2	37	CCDS1318.1	.	.	.	.	.	.	.	.	.	.	C	14.05	2.420397	0.42918	.	.	ENSG00000116147	ENST00000367674;ENST00000263525;ENST00000367673	T;T	0.27256	1.68;1.68	5.56	4.65	0.58169	.	0.451738	0.24172	N	0.040883	T	0.17916	0.0430	L	0.34521	1.04	0.26972	N	0.965578	P;P	0.47106	0.89;0.651	B;B	0.38378	0.272;0.15	T	0.11743	-1.0575	10	0.62326	D	0.03	.	9.0317	0.36262	0.0:0.7739:0.0:0.2261	.	11;11	B4DIX8;Q92752	.;TENR_HUMAN	N	11	ENSP00000356646:K11N;ENSP00000263525:K11N	ENSP00000263525:K11N	K	-	3	2	TNR	173642441	0.997000	0.39634	1.000000	0.80357	0.989000	0.77384	0.371000	0.20450	1.348000	0.45733	-0.258000	0.10820	AAG		0.542	TNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084414.4	NM_003285	
CRB1	23418	broad.mit.edu	37	1	197396584	197396584	+	Splice_Site	SNP	A	A	G	rs145282040		TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	G	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:197396584A>G	ENST00000367400.3	+	7	2264	c.2129A>G	c.(2128-2130)gAg>gGg	p.E710G	CRB1_ENST00000538660.1_Intron|CRB1_ENST00000543483.1_3'UTR|CRB1_ENST00000367399.2_Splice_Site_p.E598G|CRB1_ENST00000367397.1_Splice_Site_p.E91G|CRB1_ENST00000535699.1_Splice_Site_p.E641G|CRB1_ENST00000544212.1_Splice_Site_p.E191G	NM_201253.2	NP_957705.1	P82279	CRUM1_HUMAN	crumbs family member 1, photoreceptor morphogenesis associated	710			E -> Q (in LCA8). {ECO:0000269|PubMed:15024725}.|E -> V (in RP12). {ECO:0000269|PubMed:20591486, ECO:0000269|PubMed:20956273}.		cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|eye photoreceptor cell development (GO:0042462)|plasma membrane organization (GO:0007009)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|microvillus (GO:0005902)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.E710G(1)		NS(1)|breast(4)|central_nervous_system(2)|cervix(3)|endometrium(13)|kidney(4)|large_intestine(21)|lung(58)|ovary(7)|prostate(3)|skin(10)|upper_aerodigestive_tract(4)|urinary_tract(2)	132						GACATTGAAGAGTATGTGGCA	0.413																																																1	Substitution - Missense(1)	ovary(1)	1											59.0	55.0	57.0					1																	197396584		2203	4300	6503	195663207	SO:0001630	splice_region_variant	23418				CCDS1390.1, CCDS53454.1, CCDS58052.1, CCDS58053.1	1q31-q32.1	2014-02-06	2014-02-06		ENSG00000134376	ENSG00000134376			2343	protein-coding gene	gene with protein product		604210	"""crumbs (Drosophila) homolog 1"", ""crumbs homolog 1 (Drosophila)"""	RP12		10373321, 10508521	Standard	NM_201253		Approved	LCA8	uc001gtz.3	P82279	OTTHUMG00000035663	ENST00000367400.3:c.2129-1A>G	1.37:g.197396584A>G			195663207	A2A308|B7Z5T2|B9EG71|Q5K3A6|Q5TC28|Q5VUT1|Q6N027|Q8WWY0|Q8WWY1	Missense_Mutation	SNP	ENST00000367400.3	37	CCDS1390.1	.	.	.	.	.	.	.	.	.	.	A	14.18	2.459088	0.43634	.	.	ENSG00000134376	ENST00000535699;ENST00000367400;ENST00000367399;ENST00000544212;ENST00000367397;ENST00000367401	T;T;T;T;T	0.79940	-1.32;-1.32;-1.32;-1.32;-1.32	5.75	3.37	0.38596	Concanavalin A-like lectin/glucanase, subgroup (1);	.	.	.	.	D	0.88829	0.6543	M	0.84511	2.7	0.58432	D	0.999999	P;B;D;B	0.89917	0.547;0.285;1.0;0.412	B;B;D;B	0.97110	0.162;0.275;1.0;0.078	D	0.87170	0.2220	8	.	.	.	.	9.1357	0.36872	0.7467:0.1298:0.0:0.1235	.	641;598;359;710	F5H0L2;P82279-3;P82279-4;P82279	.;.;.;CRUM1_HUMAN	G	641;710;598;191;91;359	ENSP00000438786:E641G;ENSP00000356370:E710G;ENSP00000356369:E598G;ENSP00000444556:E191G;ENSP00000356367:E91G	.	E	+	2	0	CRB1	195663207	1.000000	0.71417	0.300000	0.25030	0.033000	0.12548	5.546000	0.67243	0.404000	0.25506	0.528000	0.53228	GAG		0.413	CRB1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086565.2	NM_201253	Missense_Mutation
KISS1	3814	broad.mit.edu	37	1	204161957	204161957	+	Silent	SNP	G	G	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	T	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:204161957G>T	ENST00000367194.4	-	2	196	c.48C>A	c.(46-48)acC>acA	p.T16T		NM_002256.3	NP_002247.3	Q15726	KISS1_HUMAN	KiSS-1 metastasis-suppressor	16					cytoskeleton organization (GO:0007010)|generation of ovulation cycle rhythm (GO:0060112)|negative regulation of cell proliferation (GO:0008285)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of luteinizing hormone secretion (GO:0033686)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of synaptic transmission (GO:0050806)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)		p.T16T(1)		large_intestine(1)|lung(1)|ovary(1)	3	all_cancers(21;0.0165)|Breast(84;0.179)|all_epithelial(62;0.242)	Breast(1374;9.42e-05)	KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.069)|Kidney(21;0.0934)|Epithelial(59;0.239)	Colorectal(1306;0.0129)		CCCCAAAGTGGGTGGCACAGA	0.532																																																1	Substitution - coding silent(1)	ovary(1)	1											32.0	32.0	32.0					1																	204161957		1867	4109	5976	202428580	SO:0001819	synonymous_variant	3814			U43527	CCDS41454.1	1q32	2014-01-30			ENSG00000170498	ENSG00000170498		"""Endogenous ligands"""	6341	protein-coding gene	gene with protein product	"""prepro-kisspeptin"", ""kisspeptin"""	603286				9192814, 9806840	Standard	NM_002256		Approved		uc001har.3	Q15726	OTTHUMG00000036060	ENST00000367194.4:c.48C>A	1.37:g.204161957G>T			202428580	A8K6N0|Q9HBP1	Silent	SNP	ENST00000367194.4	37	CCDS41454.1																																																																																				0.532	KISS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087892.1	NM_002256	
SYT14	255928	broad.mit.edu	37	1	210194567	210194567	+	Missense_Mutation	SNP	A	A	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	T	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:210194567A>T	ENST00000472886.1	+	4	424	c.410A>T	c.(409-411)gAt>gTt	p.D137V	SYT14_ENST00000367019.1_Missense_Mutation_p.D137V|SYT14_ENST00000399639.2_Missense_Mutation_p.D137V|SYT14_ENST00000534859.1_Missense_Mutation_p.D137V|SYT14_ENST00000367015.1_Missense_Mutation_p.D99V|SYT14_ENST00000271745.7_3'UTR|SYT14_ENST00000537238.1_Missense_Mutation_p.D99V|SYT14_ENST00000422431.1_Missense_Mutation_p.D182V			Q8NB59	SYT14_HUMAN	synaptotagmin XIV	137					cell death (GO:0008219)	integral component of membrane (GO:0016021)	phospholipid binding (GO:0005543)	p.D137V(1)		endometrium(4)|large_intestine(11)|lung(17)|ovary(1)|prostate(1)|skin(3)	37				OV - Ovarian serous cystadenocarcinoma(81;0.085)		GCAGAGTATGATGGATACAGT	0.388																																																1	Substitution - Missense(1)	ovary(1)	1											117.0	106.0	110.0					1																	210194567		2203	4300	6503	208261190	SO:0001583	missense	255928			AK091517	CCDS31014.1, CCDS53470.1, CCDS58058.1	1q32.2	2013-01-21			ENSG00000143469	ENSG00000143469		"""Synaptotagmins"""	23143	protein-coding gene	gene with protein product		610949					Standard	NM_001256006		Approved	sytXIV, FLJ34198	uc001hhs.5	Q8NB59	OTTHUMG00000036652	ENST00000472886.1:c.410A>T	1.37:g.210194567A>T	ENSP00000418901:p.Asp137Val		208261190	B1AJU0|B1AJU1|F5H426|Q5THX7|Q707N3|Q707N4|Q707N5|Q707N6|Q707N7	Missense_Mutation	SNP	ENST00000472886.1	37	CCDS31014.1	.	.	.	.	.	.	.	.	.	.	A	23.0	4.368445	0.82463	.	.	ENSG00000143469	ENST00000422431;ENST00000534859;ENST00000399639;ENST00000537238;ENST00000367019;ENST00000472886;ENST00000367015	T;T;T;T;T;T;T	0.19938	3.22;3.09;2.11;3.36;3.09;3.35;3.36	5.15	5.15	0.70609	.	0.051803	0.64402	D	0.000001	T	0.35480	0.0933	L	0.54323	1.7	0.80722	D	1	D;P;D;P	0.61080	0.974;0.627;0.989;0.914	P;B;P;P	0.55391	0.497;0.139;0.775;0.475	T	0.08146	-1.0736	10	0.56958	D	0.05	-14.1983	15.2559	0.73585	1.0:0.0:0.0:0.0	.	165;137;137;182	A1L3Y1;Q8NB59;Q8NB59-6;F5H426	.;SYT14_HUMAN;.;.	V	182;137;137;99;137;137;99	ENSP00000389039:D182V;ENSP00000442891:D137V;ENSP00000445837:D137V;ENSP00000437423:D99V;ENSP00000355986:D137V;ENSP00000418901:D137V;ENSP00000355982:D99V	ENSP00000355982:D99V	D	+	2	0	SYT14	208261190	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.626000	0.83164	2.078000	0.62432	0.528000	0.53228	GAT		0.388	SYT14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089124.1	NM_153262	
CNIH4	29097	broad.mit.edu	37	1	224559009	224559009	+	Missense_Mutation	SNP	C	C	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr1:224559009C>A	ENST00000465271.1	+	4	351	c.276C>A	c.(274-276)aaC>aaA	p.N92K	CNIH4_ENST00000366858.3_Intron|CNIH4_ENST00000468318.1_3'UTR|CNIH4_ENST00000366856.3_Missense_Mutation_p.N92K|CNIH4_ENST00000366857.5_Intron	NM_014184.3	NP_054903.1	Q9P003	CNIH4_HUMAN	cornichon family AMPA receptor auxiliary protein 4	92					intracellular signal transduction (GO:0035556)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)		p.N92K(1)		kidney(3)|lung(2)|ovary(2)	7				GBM - Glioblastoma multiforme(131;0.00341)		CGAGTGGTAACATGGGAGTGT	0.383																																																1	Substitution - Missense(1)	ovary(1)	1											189.0	171.0	177.0					1																	224559009		2203	4300	6503	222625632	SO:0001583	missense	29097				CCDS1543.1, CCDS60429.1, CCDS60430.1	1q42.12	2013-08-28	2013-08-28		ENSG00000143771	ENSG00000143771			25013	protein-coding gene	gene with protein product			"""cornichon homolog 4 (Drosophila)"""			11042152	Standard	NM_014184		Approved	HSPC163	uc001hom.2	Q9P003	OTTHUMG00000037635	ENST00000465271.1:c.276C>A	1.37:g.224559009C>A	ENSP00000420443:p.Asn92Lys		222625632	A8K1Q8|B2R553|Q9H0X8	Missense_Mutation	SNP	ENST00000465271.1	37	CCDS1543.1	.	.	.	.	.	.	.	.	.	.	C	22.0	4.226837	0.79576	.	.	ENSG00000143771	ENST00000465271;ENST00000366856	T;T	0.41400	1.04;1.0	5.43	4.5	0.54988	.	0.000000	0.85682	D	0.000000	T	0.59865	0.2225	M	0.62723	1.935	0.80722	D	1	D	0.76494	0.999	D	0.87578	0.998	T	0.54543	-0.8278	10	0.30854	T	0.27	-0.2236	15.098	0.72250	0.0:0.9281:0.0:0.0719	.	92	Q9P003	CNIH4_HUMAN	K	92	ENSP00000420443:N92K;ENSP00000355821:N92K	ENSP00000355821:N92K	N	+	3	2	CNIH4	222625632	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	2.555000	0.45854	2.692000	0.91855	0.655000	0.94253	AAC		0.383	CNIH4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000091754.1	NM_014184	
HERC4	26091	broad.mit.edu	37	10	69692499	69692499	+	Missense_Mutation	SNP	T	T	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	C	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr10:69692499T>C	ENST00000395198.3	-	24	2964	c.2717A>G	c.(2716-2718)aAt>aGt	p.N906S	HERC4_ENST00000412272.2_Missense_Mutation_p.N828S|HERC4_ENST00000277817.6_Missense_Mutation_p.N796S|HERC4_ENST00000373700.4_Missense_Mutation_p.N898S|HERC4_ENST00000395187.2_3'UTR	NM_022079.2	NP_071362.1	Q5GLZ8	HERC4_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 4	906	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				cell differentiation (GO:0030154)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)	p.N906S(1)		NS(1)|breast(1)|cervix(1)|endometrium(1)|large_intestine(6)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	27						CACTGATTTATTGAATATGTA	0.363																																																1	Substitution - Missense(1)	ovary(1)	10											85.0	86.0	86.0					10																	69692499		2203	4300	6503	69362505	SO:0001583	missense	26091			AY221963	CCDS7274.1, CCDS41533.1, CCDS60541.1, CCDS60542.1	10q21.3	2013-09-20	2012-02-23		ENSG00000148634	ENSG00000148634			24521	protein-coding gene	gene with protein product		609248	"""hect domain and RLD 4"""			10997877	Standard	NM_022079		Approved	DKFZP564G092, KIAA1593	uc001jng.4	Q5GLZ8	OTTHUMG00000018343	ENST00000395198.3:c.2717A>G	10.37:g.69692499T>C	ENSP00000378624:p.Asn906Ser		69362505	Q5GC98|Q5GC99|Q5GCA0|Q8IXP9|Q9HCH9	Missense_Mutation	SNP	ENST00000395198.3	37	CCDS41533.1	.	.	.	.	.	.	.	.	.	.	T	20.2	3.949254	0.73787	.	.	ENSG00000148634	ENST00000277817;ENST00000412272;ENST00000395198;ENST00000373700	T;T;T;T	0.57595	0.39;0.39;0.39;0.39	5.15	4.01	0.46588	HECT (4);	0.042277	0.85682	N	0.000000	T	0.55955	0.1953	L	0.42529	1.33	0.80722	D	1	B;P;P;P;P	0.51537	0.154;0.851;0.946;0.933;0.927	B;P;P;P;P	0.54706	0.085;0.493;0.732;0.612;0.759	T	0.55244	-0.8171	10	0.51188	T	0.08	.	10.9443	0.47292	0.0:0.0745:0.0:0.9255	.	828;796;756;898;906	Q5GLZ8-3;Q5GLZ8-6;Q5VXS9;Q5GLZ8-2;Q5GLZ8	.;.;.;.;HERC4_HUMAN	S	796;828;906;898	ENSP00000277817:N796S;ENSP00000416504:N828S;ENSP00000378624:N906S;ENSP00000362804:N898S	ENSP00000277817:N796S	N	-	2	0	HERC4	69362505	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.830000	0.48136	0.900000	0.36469	0.455000	0.32223	AAT		0.363	HERC4-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359262.1	NM_015601	
PDE2A	5138	broad.mit.edu	37	11	72296638	72296638	+	Splice_Site	SNP	C	C	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr11:72296638C>A	ENST00000334456.5	-	15	1428		c.e15-1		PDE2A_ENST00000418754.2_Splice_Site|PDE2A_ENST00000540345.1_Splice_Site|PDE2A_ENST00000376450.3_Splice_Site|PDE2A_ENST00000544570.1_Splice_Site|PDE2A_ENST00000444035.2_Splice_Site|RP11-169D4.2_ENST00000545254.1_RNA	NM_002599.4	NP_002590.1	O00408	PDE2A_HUMAN	phosphodiesterase 2A, cGMP-stimulated						blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|cAMP catabolic process (GO:0006198)|cAMP-mediated signaling (GO:0019933)|cellular response to cGMP (GO:0071321)|cellular response to drug (GO:0035690)|cellular response to granulocyte macrophage colony-stimulating factor stimulus (GO:0097011)|cellular response to macrophage colony-stimulating factor stimulus (GO:0036006)|cellular response to mechanical stimulus (GO:0071260)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cGMP catabolic process (GO:0046069)|cGMP-mediated signaling (GO:0019934)|establishment of endothelial barrier (GO:0061028)|metabolic process (GO:0008152)|monocyte differentiation (GO:0030224)|negative regulation of cAMP biosynthetic process (GO:0030818)|negative regulation of protein import into nucleus, translocation (GO:0033159)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of vascular permeability (GO:0043116)|positive regulation of inflammatory response (GO:0050729)|positive regulation of vascular permeability (GO:0043117)|protein targeting to mitochondrion (GO:0006626)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|mitochondrial matrix (GO:0005759)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	calcium channel activity (GO:0005262)|cAMP binding (GO:0030552)|cGMP binding (GO:0030553)|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity (GO:0004118)|cyclic-nucleotide phosphodiesterase activity (GO:0004112)|drug binding (GO:0008144)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|TPR domain binding (GO:0030911)	p.?(1)		breast(2)|endometrium(1)|kidney(3)|large_intestine(2)|lung(21)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	36			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Caffeine(DB00201)|Tofisopam(DB08811)	GGAGAAGAGCCTGGAATGAAG	0.582											OREG0021196	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				1	Unknown(1)	ovary(1)	11											55.0	52.0	53.0					11																	72296638		2200	4293	6493	71974286	SO:0001630	splice_region_variant	5138			U67733	CCDS8216.1, CCDS44670.1, CCDS53678.1, CCDS73345.1	11q13.1-q14.1	2008-05-14			ENSG00000186642	ENSG00000186642	3.1.4.17	"""Phosphodiesterases"""	8777	protein-coding gene	gene with protein product		602658				9210593	Standard	NM_002599		Approved		uc010rrc.2	O00408	OTTHUMG00000102045	ENST00000334456.5:c.1183-1G>T	11.37:g.72296638C>A		1136	71974286	B2R646|B3KRV5|E9PGI1|F6W5Z0|Q5J791|Q5J792|Q5J793|Q6ZMR1	Splice_Site	SNP	ENST00000334456.5	37	CCDS8216.1	.	.	.	.	.	.	.	.	.	.	C	23.4	4.414763	0.83449	.	.	ENSG00000186642	ENST00000334456;ENST00000376450;ENST00000444035;ENST00000429363;ENST00000544570;ENST00000418754;ENST00000540345;ENST00000475807;ENST00000538299	.	.	.	5.55	5.55	0.83447	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.2915	0.82755	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	PDE2A	71974286	1.000000	0.71417	0.999000	0.59377	0.950000	0.60333	3.569000	0.53827	2.632000	0.89209	0.478000	0.44815	.		0.582	PDE2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219839.2	NM_002599	Intron
ASIC1	41	broad.mit.edu	37	12	50471824	50471824	+	Missense_Mutation	SNP	A	A	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	T	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr12:50471824A>T	ENST00000447966.2	+	5	980	c.751A>T	c.(751-753)Agt>Tgt	p.S251C	ASIC1_ENST00000552438.1_Missense_Mutation_p.S285C|ASIC1_ENST00000228468.4_Missense_Mutation_p.S251C	NM_001095.3	NP_001086.2	P78348	ASIC1_HUMAN	acid-sensing (proton-gated) ion channel 1	251					associative learning (GO:0008306)|calcium ion transmembrane transport (GO:0070588)|cellular response to pH (GO:0071467)|ion transmembrane transport (GO:0034220)|memory (GO:0007613)|negative regulation of neurotransmitter secretion (GO:0046929)|protein homotrimerization (GO:0070207)|regulation of membrane potential (GO:0042391)|response to acidic pH (GO:0010447)|response to pH (GO:0009268)|sensory perception of sour taste (GO:0050915)|signal transduction (GO:0007165)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acid-sensing ion channel activity (GO:0044736)|ion gated channel activity (GO:0022839)|ligand-gated sodium channel activity (GO:0015280)	p.S251C(1)								Amiloride(DB00594)|Diclofenac(DB00586)	GCAGATCCATAGTCAGGATGA	0.592																																																1	Substitution - Missense(1)	ovary(1)	12											191.0	156.0	168.0					12																	50471824		2203	4300	6503	48758091	SO:0001583	missense	41			U78181	CCDS8796.1, CCDS44876.1, CCDS58228.1	12q12	2012-02-23	2012-02-22	2012-02-22		ENSG00000110881		"""Ion channels / Acid-sensing (proton-gated) ion channels"""	100	protein-coding gene	gene with protein product		602866	"""amiloride-sensitive cation channel 2, neuronal"""	ACCN2		9037075	Standard	NM_001095		Approved	BNaC2, hBNaC2	uc001rvv.4	P78348	OTTHUMG00000169812	ENST00000447966.2:c.751A>T	12.37:g.50471824A>T	ENSP00000400228:p.Ser251Cys		48758091	A3KN86|E5KBL7|P78349|Q96CV2	Missense_Mutation	SNP	ENST00000447966.2	37	CCDS44876.1	.	.	.	.	.	.	.	.	.	.	A	26.3	4.725119	0.89298	.	.	ENSG00000110881	ENST00000228468;ENST00000447966;ENST00000552438	T;T;T	0.67345	-0.26;-0.26;-0.26	4.09	4.09	0.47781	.	0.247618	0.38837	N	0.001552	D	0.82939	0.5146	M	0.93808	3.46	0.58432	D	0.999997	P;D	0.58620	0.922;0.983	P;P	0.58013	0.701;0.831	D	0.87891	0.2684	10	0.87932	D	0	-8.5795	13.5416	0.61676	1.0:0.0:0.0:0.0	.	251;251	P78348;P78348-1	ACCN2_HUMAN;.	C	251;251;285	ENSP00000228468:S251C;ENSP00000400228:S251C;ENSP00000450247:S285C	ENSP00000228468:S251C	S	+	1	0	ACCN2	48758091	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.086000	0.94088	1.844000	0.53588	0.460000	0.39030	AGT		0.592	ASIC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406004.2	NM_020039	
GRIP1	23426	broad.mit.edu	37	12	66849241	66849241	+	Silent	SNP	T	T	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	A	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr12:66849241T>A	ENST00000398016.3	-	10	1214	c.1146A>T	c.(1144-1146)ccA>ccT	p.P382P	GRIP1_ENST00000286445.7_Silent_p.P434P|GRIP1_ENST00000359742.4_Silent_p.P434P	NM_021150.3	NP_066973.2	Q96DT0	LEG12_HUMAN	glutamate receptor interacting protein 1	0					intrinsic apoptotic signaling pathway (GO:0097193)	nucleus (GO:0005634)	lactose binding (GO:0030395)	p.P382P(1)		NS(3)|breast(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(19)|ovary(2)|prostate(2)|skin(1)	50			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TGGTTCCACGTGGGCTGGTGG	0.488																																																1	Substitution - coding silent(1)	ovary(1)	12											159.0	156.0	157.0					12																	66849241		1949	4155	6104	65135508	SO:0001819	synonymous_variant	23426			AJ133439	CCDS41807.1	12q13.13	2008-05-02			ENSG00000155974	ENSG00000155974			18708	protein-coding gene	gene with protein product		604597				10197531	Standard	NM_021150		Approved		uc001stk.3	Q9Y3R0	OTTHUMG00000169019	ENST00000398016.3:c.1146A>T	12.37:g.66849241T>A			65135508	B2R9N2|G5E970|Q96DS9|Q96PR9|Q9H258|Q9H259|Q9NZ02	Silent	SNP	ENST00000398016.3	37	CCDS41807.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	10.39|10.39	1.337338|1.337338	0.24253|0.24253	.|.	.|.	ENSG00000155974|ENSG00000155974	ENST00000538164|ENST00000543172	.|.	.|.	.|.	5.51|5.51	-1.91|-1.91	0.07641|0.07641	.|.	.|.	.|.	.|.	.|.	T|T	0.43277|0.43277	0.1240|0.1240	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.31752|0.31752	-0.9932|-0.9932	4|4	.|.	.|.	.|.	-11.5531|-11.5531	4.2799|4.2799	0.10827|0.10827	0.3275:0.1886:0.0:0.4839|0.3275:0.1886:0.0:0.4839	.|.	.|.	.|.	.|.	L|S	249|202	.|.	.|.	H|T	-|-	2|1	0|0	GRIP1|GRIP1	65135508|65135508	0.010000|0.010000	0.17322|0.17322	0.997000|0.997000	0.53966|0.53966	0.980000|0.980000	0.70556|0.70556	-1.237000|-1.237000	0.02922|0.02922	-0.137000|-0.137000	0.11455|0.11455	-0.441000|-0.441000	0.05720|0.05720	CAC|ACG		0.488	GRIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401975.2		
PARP4	143	broad.mit.edu	37	13	25060373	25060373	+	Missense_Mutation	SNP	T	T	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	C	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr13:25060373T>C	ENST00000381989.3	-	11	1390	c.1285A>G	c.(1285-1287)Aaa>Gaa	p.K429E		NM_006437.3	NP_006428.2	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	429	PARP catalytic. {ECO:0000255|PROSITE- ProRule:PRU00397}.				cell death (GO:0008219)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|inflammatory response (GO:0006954)|protein ADP-ribosylation (GO:0006471)|response to drug (GO:0042493)|transport (GO:0006810)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|spindle microtubule (GO:0005876)	DNA binding (GO:0003677)|enzyme binding (GO:0019899)|NAD+ ADP-ribosyltransferase activity (GO:0003950)	p.K429E(1)		autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(14)|lung(18)|ovary(3)|prostate(2)|skin(6)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	63		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		TTACCAAGTTTGCTCAAAAAC	0.388																																																1	Substitution - Missense(1)	ovary(1)	13											108.0	97.0	101.0					13																	25060373		2203	4300	6503	23958373	SO:0001583	missense	143			AF057160	CCDS9307.1	13q11	2010-09-29	2004-08-20	2004-08-26	ENSG00000102699	ENSG00000102699		"""Poly (ADP-ribose) polymerases"""	271	protein-coding gene	gene with protein product	"""von Willebrand factor A domain containing 5C"""	607519	"""ADP-ribosyltransferase (NAD+; poly (ADP-ribose) polymerase)-like 1"""	ADPRTL1		10644454	Standard	NM_006437		Approved	VAULT3, p193, VPARP, VWA5C	uc001upl.3	Q9UKK3	OTTHUMG00000016582	ENST00000381989.3:c.1285A>G	13.37:g.25060373T>C	ENSP00000371419:p.Lys429Glu		23958373	O75903|Q14682|Q5QNZ9|Q9H1M6	Missense_Mutation	SNP	ENST00000381989.3	37	CCDS9307.1	.	.	.	.	.	.	.	.	.	.	T	0.012	-1.685779	0.00738	.	.	ENSG00000102699	ENST00000381989	T	0.14391	2.51	4.56	0.758	0.18432	Poly(ADP-ribose) polymerase, catalytic domain (2);	0.714516	0.13212	U	0.405108	T	0.09730	0.0239	L	0.31294	0.92	0.09310	N	1	B	0.23650	0.089	B	0.25614	0.062	T	0.40136	-0.9579	10	0.14656	T	0.56	-0.042	11.2239	0.48871	0.0:0.0:0.5254:0.4746	.	429	Q9UKK3	PARP4_HUMAN	E	429	ENSP00000371419:K429E	ENSP00000371419:K429E	K	-	1	0	PARP4	23958373	0.867000	0.29959	0.056000	0.19401	0.058000	0.15608	1.772000	0.38552	-0.010000	0.14271	-0.472000	0.04984	AAA		0.388	PARP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044189.1	NM_006437	
OXGR1	27199	broad.mit.edu	37	13	97639260	97639260	+	Missense_Mutation	SNP	C	C	T	rs144457939		TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr13:97639260C>T	ENST00000298440.1	-	4	997	c.754G>A	c.(754-756)Gta>Ata	p.V252I	OXGR1_ENST00000543457.1_Missense_Mutation_p.V252I	NM_080818.3	NP_543008.3	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	252					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)	p.V252L(2)|p.V252I(1)		NS(1)|large_intestine(1)|lung(9)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	15	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			AAAAAACATACGTAAAATGCA	0.438																																																3	Substitution - Missense(3)	lung(2)|ovary(1)	13						C	ILE/VAL	1,4405	2.1+/-5.4	0,1,2202	122.0	119.0	120.0		754	-1.5	0.3	13	dbSNP_134	120	0,8600		0,0,4300	no	missense	OXGR1	NM_080818.3	29	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	benign	252/338	97639260	1,13005	2203	4300	6503	96437261	SO:0001583	missense	27199			AF411109	CCDS9482.1	13q32.2	2014-04-09	2004-07-08	2004-07-09	ENSG00000165621	ENSG00000165621		"""GPCR / Class A : Orphans"""	4531	protein-coding gene	gene with protein product	"""2-oxoglutarate receptor 1"", ""alpha-ketoglutarate receptor 1"""	606922	"""G protein-coupled receptor 80"""	GPR99, GPR80		15141213, 12098360	Standard	NM_080818		Approved	P2RY15, P2Y15, aKGR	uc001vmx.1	Q96P68	OTTHUMG00000017236	ENST00000298440.1:c.754G>A	13.37:g.97639260C>T	ENSP00000298440:p.Val252Ile		96437261	Q5T5A7|Q86TL1	Missense_Mutation	SNP	ENST00000298440.1	37	CCDS9482.1	.	.	.	.	.	.	.	.	.	.	C	2.661	-0.279643	0.05642	2.27E-4	0.0	ENSG00000165621	ENST00000298440;ENST00000543457	T;T	0.36699	1.24;1.24	5.83	-1.51	0.08664	GPCR, rhodopsin-like superfamily (1);	0.562270	0.18992	N	0.125569	T	0.17238	0.0414	N	0.11756	0.17	0.09310	N	0.999998	B	0.19817	0.039	B	0.19391	0.025	T	0.28964	-1.0027	10	0.08837	T	0.75	.	13.4167	0.60972	0.0:0.6035:0.0:0.3965	.	252	Q96P68	OXGR1_HUMAN	I	252	ENSP00000298440:V252I;ENSP00000438800:V252I	ENSP00000298440:V252I	V	-	1	0	OXGR1	96437261	0.000000	0.05858	0.275000	0.24674	0.538000	0.34931	-0.242000	0.08928	-0.354000	0.08212	-0.355000	0.07637	GTA		0.438	OXGR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045521.3	NM_080818	
MYO5A	4644	broad.mit.edu	37	15	52689476	52689476	+	Missense_Mutation	SNP	C	C	G			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	G	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr15:52689476C>G	ENST00000399231.3	-	10	1484	c.1241G>C	c.(1240-1242)tGg>tCg	p.W414S	MYO5A_ENST00000399233.2_Missense_Mutation_p.W414S|MYO5A_ENST00000553916.1_Missense_Mutation_p.W414S|MYO5A_ENST00000358212.6_Missense_Mutation_p.W414S|MYO5A_ENST00000356338.6_Missense_Mutation_p.W414S	NM_000259.3	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA (heavy chain 12, myoxin)	414	Myosin motor.				actin filament-based movement (GO:0030048)|anagen (GO:0042640)|cellular protein metabolic process (GO:0044267)|cellular response to insulin stimulus (GO:0032869)|endoplasmic reticulum localization (GO:0051643)|exocytosis (GO:0006887)|insulin secretion (GO:0030073)|locomotion involved in locomotory behavior (GO:0031987)|long-chain fatty acid biosynthetic process (GO:0042759)|melanin biosynthetic process (GO:0042438)|melanocyte differentiation (GO:0030318)|melanosome transport (GO:0032402)|membrane organization (GO:0061024)|myelination (GO:0042552)|odontogenesis (GO:0042476)|post-Golgi vesicle-mediated transport (GO:0006892)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)|regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031585)|secretory granule localization (GO:0032252)|synapse organization (GO:0050808)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vesicle transport along actin filament (GO:0030050)|vesicle-mediated transport (GO:0016192)|visual perception (GO:0007601)	actomyosin (GO:0042641)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium tip (GO:0032433)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|insulin-responsive compartment (GO:0032593)|intermediate filament (GO:0005882)|melanosome (GO:0042470)|membrane (GO:0016020)|microtubule plus-end (GO:0035371)|myosin complex (GO:0016459)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|photoreceptor outer segment (GO:0001750)|ruffle (GO:0001726)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|microfilament motor activity (GO:0000146)|poly(A) RNA binding (GO:0044822)|Rab GTPase binding (GO:0017137)	p.W414S(1)		breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(7)|large_intestine(12)|lung(19)|ovary(3)|skin(3)|stomach(1)	57				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		ATCTACAATCCAGTTAAAGAG	0.463																																																1	Substitution - Missense(1)	ovary(1)	15											98.0	91.0	93.0					15																	52689476		1963	4152	6115	50476768	SO:0001583	missense	4644				CCDS42037.1, CCDS45262.1	15q21	2014-09-17	2006-09-29		ENSG00000197535	ENSG00000197535		"""Myosins / Myosin superfamily : Class V"""	7602	protein-coding gene	gene with protein product	"""myosin, heavy polypeptide kinase"", ""myosin heavy chain 12"", ""myoxin"", ""myosin V"""	160777	"""myosin VA (heavy polypeptide 12, myoxin)"""	MYH12		8188282, 8022818	Standard	NM_000259		Approved	MYO5, GS1, MYR12	uc002aby.2	Q9Y4I1	OTTHUMG00000137383	ENST00000399231.3:c.1241G>C	15.37:g.52689476C>G	ENSP00000382177:p.Trp414Ser		50476768	A8MZC5|O60653|Q07902|Q16249|Q9UE30|Q9UE31	Missense_Mutation	SNP	ENST00000399231.3	37	CCDS42037.1	.	.	.	.	.	.	.	.	.	.	C	25.6	4.656209	0.88056	.	.	ENSG00000197535	ENST00000399231;ENST00000399233;ENST00000356338;ENST00000358212;ENST00000546028;ENST00000553916	D;D;D;D;D	0.91464	-2.85;-2.85;-2.85;-2.85;-2.85	5.84	5.84	0.93424	Myosin head, motor domain (2);	0.000000	0.85682	D	0.000000	D	0.97126	0.9061	H	0.96576	3.845	0.80722	D	1	D;D	0.71674	0.96;0.998	P;D	0.66497	0.852;0.944	D	0.97842	1.0269	10	0.87932	D	0	.	20.1392	0.98050	0.0:1.0:0.0:0.0	.	414;414	Q9Y4I1;Q9Y4I1-2	MYO5A_HUMAN;.	S	414;414;414;414;44;414	ENSP00000382177:W414S;ENSP00000382179:W414S;ENSP00000348693:W414S;ENSP00000350945:W414S;ENSP00000451109:W414S	ENSP00000348693:W414S	W	-	2	0	MYO5A	50476768	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.066000	0.71185	2.751000	0.94390	0.591000	0.81541	TGG		0.463	MYO5A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268102.1	NM_000259	
HERC1	8925	broad.mit.edu	37	15	63958318	63958318	+	Silent	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr15:63958318G>A	ENST00000443617.2	-	42	8442	c.8355C>T	c.(8353-8355)atC>atT	p.I2785I		NM_003922.3	NP_003913.3	Q15751	HERC1_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	2785					cerebellar Purkinje cell differentiation (GO:0021702)|negative regulation of autophagy (GO:0010507)|neuromuscular process controlling balance (GO:0050885)|neuron projection development (GO:0031175)|positive regulation of GTPase activity (GO:0043547)|transport (GO:0006810)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)	p.I2785I(1)		NS(3)|breast(9)|central_nervous_system(4)|endometrium(23)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(22)|liver(1)|lung(36)|ovary(7)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	132						CAAGGACAGTGATATTCTGGG	0.517																																																1	Substitution - coding silent(1)	ovary(1)	15											37.0	37.0	37.0					15																	63958318		2007	4177	6184	61745371	SO:0001819	synonymous_variant	8925			U50078	CCDS45277.1	15q22	2013-01-10	2012-02-23			ENSG00000103657		"""WD repeat domain containing"""	4867	protein-coding gene	gene with protein product		605109	"""hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 1"""			8861955, 9233772	Standard	NM_003922		Approved	p532, p619	uc002amp.3	Q15751		ENST00000443617.2:c.8355C>T	15.37:g.63958318G>A			61745371	Q8IW65	Silent	SNP	ENST00000443617.2	37	CCDS45277.1																																																																																				0.517	HERC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418523.1	NM_003922	
MYH13	8735	broad.mit.edu	37	17	10263337	10263337	+	Nonsense_Mutation	SNP	A	A	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	T	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr17:10263337A>T	ENST00000418404.3	-	6	748	c.585T>A	c.(583-585)taT>taA	p.Y195*	MYH13_ENST00000252172.4_Nonsense_Mutation_p.Y195*			Q9UKX3	MYH13_HUMAN	myosin, heavy chain 13, skeletal muscle	195	Myosin motor.				cellular response to starvation (GO:0009267)|metabolic process (GO:0008152)|muscle contraction (GO:0006936)	extracellular vesicular exosome (GO:0070062)|muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)	p.Y195*(1)		breast(3)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(21)|lung(48)|ovary(7)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(2)	108						TTGTTGCAAAATACTGGATGA	0.517																																																1	Substitution - Nonsense(1)	ovary(1)	17											103.0	104.0	104.0					17																	10263337		2203	4300	6503	10204062	SO:0001587	stop_gained	8735			AF075248	CCDS45613.1	17p13	2011-09-27	2006-09-29			ENSG00000006788		"""Myosins / Myosin superfamily : Class II"""	7571	protein-coding gene	gene with protein product	"""extraocular muscle myosin heavy chain"", ""extraocular myosin heavy chain"""	603487	"""myosin, heavy polypeptide 13, skeletal muscle"""			9806854	Standard	NM_003802		Approved	MyHC-eo	uc002gmk.1	Q9UKX3		ENST00000418404.3:c.585T>A	17.37:g.10263337A>T	ENSP00000404570:p.Tyr195*		10204062	O95252|Q9P0U8	Nonsense_Mutation	SNP	ENST00000418404.3	37	CCDS45613.1	.	.	.	.	.	.	.	.	.	.	A	38	6.699846	0.97772	.	.	ENSG00000006788	ENST00000252172	.	.	.	3.94	2.96	0.34315	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	8.654	0.34051	0.2606:0.0:0.7394:0.0	.	.	.	.	X	195	.	ENSP00000252172:Y195X	Y	-	3	2	MYH13	10204062	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.144000	0.50616	0.973000	0.38340	-0.242000	0.12053	TAT		0.517	MYH13-003	KNOWN	alternative_3_UTR|alternative_5_UTR|NMD_exception|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442255.1	NM_003802	
NF1	4763	broad.mit.edu	37	17	29509525	29509525	+	Splice_Site	SNP	G	G	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	T	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Sequenom;Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr17:29509525G>T	ENST00000358273.4	+	8	1113		c.e8-1		NF1_ENST00000431387.4_Splice_Site|NF1_ENST00000356175.3_Splice_Site	NM_001042492.2	NP_001035957.1	P21359	NF1_HUMAN	neurofibromin 1						actin cytoskeleton organization (GO:0030036)|adrenal gland development (GO:0030325)|artery morphogenesis (GO:0048844)|brain development (GO:0007420)|camera-type eye morphogenesis (GO:0048593)|cell communication (GO:0007154)|cerebral cortex development (GO:0021987)|cognition (GO:0050890)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|forebrain astrocyte development (GO:0021897)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|liver development (GO:0001889)|MAPK cascade (GO:0000165)|metanephros development (GO:0001656)|myelination in peripheral nervous system (GO:0022011)|negative regulation of angiogenesis (GO:0016525)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of cell migration (GO:0030336)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of neurotransmitter secretion (GO:0046929)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of osteoclast differentiation (GO:0045671)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of Rac protein signal transduction (GO:0035021)|negative regulation of Ras protein signal transduction (GO:0046580)|negative regulation of transcription factor import into nucleus (GO:0042992)|neural tube development (GO:0021915)|osteoblast differentiation (GO:0001649)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|pigmentation (GO:0043473)|positive regulation of adenylate cyclase activity (GO:0045762)|positive regulation of apoptotic process (GO:0043065)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)|regulation of angiogenesis (GO:0045765)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of bone resorption (GO:0045124)|regulation of cell-matrix adhesion (GO:0001952)|regulation of glial cell differentiation (GO:0045685)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of Ras GTPase activity (GO:0032318)|regulation of synaptic transmission, GABAergic (GO:0032228)|response to hypoxia (GO:0001666)|Schwann cell development (GO:0014044)|skeletal muscle tissue development (GO:0007519)|smooth muscle tissue development (GO:0048745)|spinal cord development (GO:0021510)|sympathetic nervous system development (GO:0048485)|visual learning (GO:0008542)|wound healing (GO:0042060)	axon (GO:0030424)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|membrane (GO:0016020)|nucleus (GO:0005634)	phosphatidylcholine binding (GO:0031210)|phosphatidylethanolamine binding (GO:0008429)|Ras GTPase activator activity (GO:0005099)	p.0?(8)|p.?(5)	NF1/ACCN1(2)	autonomic_ganglia(12)|breast(11)|central_nervous_system(72)|cervix(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(59)|kidney(9)|large_intestine(39)|liver(1)|lung(80)|ovary(20)|pancreas(2)|prostate(2)|skin(8)|soft_tissue(249)|stomach(2)|thyroid(1)|upper_aerodigestive_tract(5)|urinary_tract(9)	599		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TTTTCATGCAGAATGTGCAGA	0.358			"""D, Mis, N, F, S, O"""		"""neurofibroma, glioma"""	"""neurofibroma, glioma"""			Neurofibromatosis, type 1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)																												yes	Rec	yes	Neurofibromatosis type 1	17	17q12	4763	neurofibromatosis type 1 gene		O	13	Whole gene deletion(8)|Unknown(5)	soft_tissue(7)|autonomic_ganglia(3)|central_nervous_system(2)|ovary(1)	17	GRCh37	CS086352|CS086353	NF1	S							71.0	62.0	65.0					17																	29509525		2203	4300	6503	26533651	SO:0001630	splice_region_variant	4763	Familial Cancer Database	NF1, von Recklinghausen disease, incl.: Hereditary Spinal Neurofibromatosis, Neurofibromatosis-Noonan syndrome		CCDS11264.1, CCDS42292.1, CCDS45645.1	17q11.2	2014-09-17	2008-07-31		ENSG00000196712	ENSG00000196712			7765	protein-coding gene	gene with protein product	"""neurofibromatosis"", ""von Recklinghausen disease"", ""Watson disease"""	613113				1715669	Standard	NM_000267		Approved		uc002hgg.3	P21359	OTTHUMG00000132871	ENST00000358273.4:c.731-1G>T	17.37:g.29509525G>T			26533651	O00662|Q14284|Q14930|Q14931|Q9UMK3	Splice_Site	SNP	ENST00000358273.4	37	CCDS42292.1	.	.	.	.	.	.	.	.	.	.	G	27.0	4.788502	0.90367	.	.	ENSG00000196712	ENST00000431387;ENST00000358273;ENST00000356175	.	.	.	5.37	3.33	0.38152	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.8846	0.41253	0.0723:0.0:0.788:0.1398	.	.	.	.	.	-1	.	.	.	+	.	.	NF1	26533651	1.000000	0.71417	0.806000	0.32338	0.928000	0.56348	8.798000	0.91888	0.607000	0.29982	0.561000	0.74099	.		0.358	NF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256351.2	NM_000267	Intron
NF1	4763	broad.mit.edu	37	17	29654820	29654820	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Sequenom;Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr17:29654820G>A	ENST00000358273.4	+	38	5955	c.5572G>A	c.(5572-5574)Gca>Aca	p.A1858T	NF1_ENST00000581113.2_3'UTR|NF1_ENST00000356175.3_Missense_Mutation_p.A1837T	NM_001042492.2	NP_001035957.1	P21359	NF1_HUMAN	neurofibromin 1	1858					actin cytoskeleton organization (GO:0030036)|adrenal gland development (GO:0030325)|artery morphogenesis (GO:0048844)|brain development (GO:0007420)|camera-type eye morphogenesis (GO:0048593)|cell communication (GO:0007154)|cerebral cortex development (GO:0021987)|cognition (GO:0050890)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|forebrain astrocyte development (GO:0021897)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|liver development (GO:0001889)|MAPK cascade (GO:0000165)|metanephros development (GO:0001656)|myelination in peripheral nervous system (GO:0022011)|negative regulation of angiogenesis (GO:0016525)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of cell migration (GO:0030336)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of neurotransmitter secretion (GO:0046929)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of osteoclast differentiation (GO:0045671)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of Rac protein signal transduction (GO:0035021)|negative regulation of Ras protein signal transduction (GO:0046580)|negative regulation of transcription factor import into nucleus (GO:0042992)|neural tube development (GO:0021915)|osteoblast differentiation (GO:0001649)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|pigmentation (GO:0043473)|positive regulation of adenylate cyclase activity (GO:0045762)|positive regulation of apoptotic process (GO:0043065)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)|regulation of angiogenesis (GO:0045765)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of bone resorption (GO:0045124)|regulation of cell-matrix adhesion (GO:0001952)|regulation of glial cell differentiation (GO:0045685)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of Ras GTPase activity (GO:0032318)|regulation of synaptic transmission, GABAergic (GO:0032228)|response to hypoxia (GO:0001666)|Schwann cell development (GO:0014044)|skeletal muscle tissue development (GO:0007519)|smooth muscle tissue development (GO:0048745)|spinal cord development (GO:0021510)|sympathetic nervous system development (GO:0048485)|visual learning (GO:0008542)|wound healing (GO:0042060)	axon (GO:0030424)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|membrane (GO:0016020)|nucleus (GO:0005634)	phosphatidylcholine binding (GO:0031210)|phosphatidylethanolamine binding (GO:0008429)|Ras GTPase activator activity (GO:0005099)	p.0?(8)|p.?(3)|p.A1858T(1)	NF1/ACCN1(2)	autonomic_ganglia(12)|breast(11)|central_nervous_system(72)|cervix(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(59)|kidney(9)|large_intestine(39)|liver(1)|lung(80)|ovary(20)|pancreas(2)|prostate(2)|skin(8)|soft_tissue(249)|stomach(2)|thyroid(1)|upper_aerodigestive_tract(5)|urinary_tract(9)	599		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GCTCAATATCGCATTACTTAA	0.443			"""D, Mis, N, F, S, O"""		"""neurofibroma, glioma"""	"""neurofibroma, glioma"""			Neurofibromatosis, type 1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)																												yes	Rec	yes	Neurofibromatosis type 1	17	17q12	4763	neurofibromatosis type 1 gene		O	12	Whole gene deletion(8)|Unknown(3)|Substitution - Missense(1)	soft_tissue(7)|autonomic_ganglia(2)|lung(1)|ovary(1)|central_nervous_system(1)	17											92.0	92.0	92.0					17																	29654820		2203	4300	6503	26678946	SO:0001583	missense	4763	Familial Cancer Database	NF1, von Recklinghausen disease, incl.: Hereditary Spinal Neurofibromatosis, Neurofibromatosis-Noonan syndrome		CCDS11264.1, CCDS42292.1, CCDS45645.1	17q11.2	2014-09-17	2008-07-31		ENSG00000196712	ENSG00000196712			7765	protein-coding gene	gene with protein product	"""neurofibromatosis"", ""von Recklinghausen disease"", ""Watson disease"""	613113				1715669	Standard	NM_000267		Approved		uc002hgg.3	P21359	OTTHUMG00000132871	ENST00000358273.4:c.5572G>A	17.37:g.29654820G>A	ENSP00000351015:p.Ala1858Thr		26678946	O00662|Q14284|Q14930|Q14931|Q9UMK3	Missense_Mutation	SNP	ENST00000358273.4	37	CCDS42292.1	.	.	.	.	.	.	.	.	.	.	G	32	5.180447	0.94846	.	.	ENSG00000196712	ENST00000358273;ENST00000356175;ENST00000456735	T;T;T	0.65364	1.48;-0.15;1.48	5.8	5.8	0.92144	Armadillo-type fold (2);	0.000000	0.85682	D	0.000000	T	0.79470	0.4451	M	0.71920	2.185	0.80722	D	1	D;D;P	0.76494	0.998;0.999;0.824	P;D;B	0.76575	0.638;0.988;0.18	T	0.79850	-0.1629	10	0.62326	D	0.03	.	19.049	0.93034	0.0:0.0:1.0:0.0	.	887;1837;1858	Q59FX3;P21359-2;P21359	.;.;NF1_HUMAN	T	1858;1837;1503	ENSP00000351015:A1858T;ENSP00000348498:A1837T;ENSP00000389907:A1503T	ENSP00000348498:A1837T	A	+	1	0	NF1	26678946	1.000000	0.71417	0.952000	0.39060	0.949000	0.60115	9.434000	0.97515	2.733000	0.93635	0.650000	0.86243	GCA		0.443	NF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256351.2	NM_000267	
ASXL3	80816	broad.mit.edu	37	18	31322969	31322969	+	Missense_Mutation	SNP	A	A	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	T	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr18:31322969A>T	ENST00000269197.5	+	12	3157	c.3157A>T	c.(3157-3159)Acc>Tcc	p.T1053S		NM_030632.1	NP_085135.1	Q9C0F0	ASXL3_HUMAN	additional sex combs like transcriptional regulator 3	1053	Ala-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.T760S(1)		breast(3)|endometrium(3)|kidney(3)|large_intestine(6)|lung(22)|ovary(2)|pancreas(1)|skin(2)|urinary_tract(1)	43						AGGAGCCAGGACCCTCGCAGA	0.597																																																1	Substitution - Missense(1)	ovary(1)	18											30.0	31.0	31.0					18																	31322969		1902	4114	6016	29576967	SO:0001583	missense	80816			AB051500	CCDS45847.1	18q11	2014-06-17	2014-06-17	2007-02-01		ENSG00000141431			29357	protein-coding gene	gene with protein product		615115	"""KIAA1713"", ""additional sex combs like 3 (Drosophila)"""	KIAA1713		11214970	Standard	NM_030632		Approved		uc010dmg.1	Q9C0F0		ENST00000269197.5:c.3157A>T	18.37:g.31322969A>T	ENSP00000269197:p.Thr1053Ser		29576967	Q6ZMX6|Q96MU3|Q9UFC5	Missense_Mutation	SNP	ENST00000269197.5	37	CCDS45847.1	.	.	.	.	.	.	.	.	.	.	A	23.7	4.443149	0.83993	.	.	ENSG00000141431	ENST00000269197	T	0.50813	0.73	5.9	5.9	0.94986	.	0.901323	0.09623	N	0.777348	T	0.68293	0.2985	L	0.59436	1.845	0.46317	D	0.998986	D	0.76494	0.999	D	0.78314	0.991	T	0.60495	-0.7252	10	0.52906	T	0.07	.	16.3352	0.83056	1.0:0.0:0.0:0.0	.	1053	Q9C0F0	ASXL3_HUMAN	S	1053	ENSP00000269197:T1053S	ENSP00000269197:T1053S	T	+	1	0	ASXL3	29576967	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	6.906000	0.75719	2.248000	0.74166	0.528000	0.53228	ACC		0.597	ASXL3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441865.2		
ZNF491	126069	broad.mit.edu	37	19	11917484	11917484	+	Missense_Mutation	SNP	G	G	T	rs143071621	byFrequency	TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	T	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr19:11917484G>T	ENST00000323169.5	+	3	1047	c.716G>T	c.(715-717)gGa>gTa	p.G239V	ZNF491_ENST00000492230.1_Intron	NM_152356.3	NP_689569.2	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	239					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.G239A(1)|p.G239V(1)		central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(14)|lung(6)|ovary(2)|skin(1)	26						ACTCACACAGGAGAAAAACCC	0.428																																																2	Substitution - Missense(2)	ovary(1)|central_nervous_system(1)	19											49.0	52.0	51.0					19																	11917484		2203	4300	6503	11778484	SO:0001583	missense	126069			AK092110	CCDS12267.1	19p13.2	2013-01-08			ENSG00000177599	ENSG00000177599		"""Zinc fingers, C2H2-type"""	23706	protein-coding gene	gene with protein product							Standard	XM_005259730		Approved	FLJ34791	uc002mso.1	Q8N8L2	OTTHUMG00000156529	ENST00000323169.5:c.716G>T	19.37:g.11917484G>T	ENSP00000313443:p.Gly239Val		11778484	Q3MJ35|Q8NAT8	Missense_Mutation	SNP	ENST00000323169.5	37	CCDS12267.1	.	.	.	.	.	.	.	.	.	.	g	11.66	1.703653	0.30232	.	.	ENSG00000177599	ENST00000323169;ENST00000455048	T	0.01599	4.74	0.981	-0.155	0.13395	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.07908	0.0198	M	0.89478	3.035	0.53005	D	0.999968	D	0.76494	0.999	D	0.63703	0.917	T	0.07731	-1.0757	9	0.87932	D	0	.	4.2302	0.10599	0.1727:0.2416:0.5857:0.0	.	239	Q8N8L2	ZN491_HUMAN	V	239;211	ENSP00000313443:G239V	ENSP00000313443:G239V	G	+	2	0	ZNF491	11778484	0.995000	0.38212	0.010000	0.14722	0.047000	0.14425	2.243000	0.43115	-0.016000	0.14127	-0.571000	0.04153	GGA		0.428	ZNF491-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344518.1	NM_152356	
EGLN2	112398	broad.mit.edu	37	19	41307036	41307036	+	Missense_Mutation	SNP	C	C	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr19:41307036C>T	ENST00000593726.1	+	1	1587	c.559C>T	c.(559-561)Cgg>Tgg	p.R187W	EGLN2_ENST00000303961.4_Missense_Mutation_p.R187W|EGLN2_ENST00000406058.2_Missense_Mutation_p.R187W|RAB4B-EGLN2_ENST00000594136.1_3'UTR|EGLN2_ENST00000594140.1_5'Flank|CTC-490E21.12_ENST00000601627.1_5'Flank			Q96KS0	EGLN2_HUMAN	egl-9 family hypoxia-inducible factor 2	187					cell redox homeostasis (GO:0045454)|cellular response to hypoxia (GO:0071456)|intracellular estrogen receptor signaling pathway (GO:0030520)|peptidyl-proline hydroxylation to 4-hydroxy-L-proline (GO:0018401)|positive regulation of protein catabolic process (GO:0045732)|regulation of cell growth (GO:0001558)|regulation of neuron apoptotic process (GO:0043523)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|response to hypoxia (GO:0001666)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ferrous iron binding (GO:0008198)|L-ascorbic acid binding (GO:0031418)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|oxygen sensor activity (GO:0019826)|peptidyl-proline 4-dioxygenase activity (GO:0031545)	p.R187W(1)		breast(2)|endometrium(1)|large_intestine(2)|lung(3)|ovary(2)	10			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	GCCCTGCATGCGGTACTACGG	0.692																																																1	Substitution - Missense(1)	ovary(1)	19											79.0	85.0	83.0					19																	41307036		2203	4299	6502	45998876	SO:0001583	missense	112398			AJ310544	CCDS12567.1	19q13.2	2013-08-21	2013-08-21		ENSG00000269858	ENSG00000269858			14660	protein-coding gene	gene with protein product	"""HIF prolyl hydroxylase 1"""	606424	"""EGL nine (C.elegans) homolog 2"", ""egl nine homolog 2 (C. elegans)"""				Standard	NM_080732		Approved	PHD1, HIFPH1	uc002oph.3	Q96KS0		ENST00000593726.1:c.559C>T	19.37:g.41307036C>T	ENSP00000469686:p.Arg187Trp		45998876	A8K5S0|Q8WWY4|Q9BV14	Missense_Mutation	SNP	ENST00000593726.1	37	CCDS12567.1	.	.	.	.	.	.	.	.	.	.	C	18.74	3.688087	0.68271	.	.	ENSG00000171570	ENST00000303961;ENST00000406058	T;T	0.26223	1.75;1.75	4.16	3.1	0.35709	.	0.145189	0.42294	D	0.000737	T	0.34135	0.0887	L	0.34521	1.04	0.41426	D	0.987835	D	0.76494	0.999	D	0.65684	0.937	T	0.06625	-1.0816	10	0.51188	T	0.08	-11.9768	10.1844	0.42988	0.4904:0.5096:0.0:0.0	.	187	Q96KS0	EGLN2_HUMAN	W	187	ENSP00000307080:R187W;ENSP00000385253:R187W	ENSP00000307080:R187W	R	+	1	2	EGLN2	45998876	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.109000	0.31135	1.078000	0.41014	0.591000	0.81541	CGG		0.692	EGLN2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463218.1		
NRXN1	9378	broad.mit.edu	37	2	50699576	50699576	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr2:50699576G>A	ENST00000406316.2	-	16	4580	c.3104C>T	c.(3103-3105)aCa>aTa	p.T1035I	NRXN1_ENST00000405472.3_Missense_Mutation_p.T1027I|NRXN1_ENST00000331040.5_5'UTR|NRXN1_ENST00000401710.1_Missense_Mutation_p.T44I|NRXN1_ENST00000401669.2_Missense_Mutation_p.T1035I|NRXN1_ENST00000402717.3_Missense_Mutation_p.T1027I|NRXN1_ENST00000406859.3_Missense_Mutation_p.T1035I|NRXN1_ENST00000404971.1_Missense_Mutation_p.T1075I	NM_004801.4	NP_004792.1	Q9ULB1	NRX1A_HUMAN	neurexin 1	1035	Laminin G-like 5. {ECO:0000255|PROSITE- ProRule:PRU00122}.				adult behavior (GO:0030534)|axon guidance (GO:0007411)|calcium-dependent cell-cell adhesion (GO:0016339)|cerebellar granule cell differentiation (GO:0021707)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|gamma-aminobutyric acid receptor clustering (GO:0097112)|gephyrin clustering (GO:0097116)|guanylate kinase-associated protein clustering (GO:0097117)|heterophilic cell-cell adhesion (GO:0007157)|learning (GO:0007612)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of filopodium assembly (GO:0051490)|neuroligin clustering (GO:0097118)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|neuron maturation (GO:0042551)|neurotransmitter secretion (GO:0007269)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density protein 95 clustering (GO:0097119)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|receptor localization to synapse (GO:0097120)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic vesicle clustering (GO:0097091)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	axonal growth cone (GO:0044295)|cell junction (GO:0030054)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	acetylcholine receptor binding (GO:0033130)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|cell adhesion molecule binding (GO:0050839)|neuroligin family protein binding (GO:0097109)|receptor activity (GO:0004872)	p.T1035I(1)		breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(33)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	58		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGATTTGTATGTTTCTTTAGC	0.403																																																1	Substitution - Missense(1)	ovary(1)	2											100.0	96.0	97.0					2																	50699576		1863	4097	5960	50553080	SO:0001583	missense	9378			AB011150	CCDS1845.1, CCDS46282.1, CCDS54360.1	2p16.3	2008-05-15			ENSG00000179915	ENSG00000179915			8008	protein-coding gene	gene with protein product		600565					Standard	NM_001135659		Approved	KIAA0578, Hs.22998	uc021vhj.1	P58400	OTTHUMG00000129263	ENST00000406316.2:c.3104C>T	2.37:g.50699576G>A	ENSP00000384311:p.Thr1035Ile		50553080	A7KRL9|O60323|Q53TJ9|Q53TQ1|Q9C079|Q9C080|Q9C081|Q9H3M2|Q9UDM6	Missense_Mutation	SNP	ENST00000406316.2	37	CCDS54360.1	.	.	.	.	.	.	.	.	.	.	G	14.84	2.656967	0.47467	.	.	ENSG00000179915	ENST00000401710;ENST00000404971;ENST00000406316;ENST00000405472;ENST00000401669;ENST00000536085;ENST00000402717;ENST00000406859	T;T;T;T;T;T;T	0.77750	-1.12;-1.12;-1.12;-1.12;-1.12;-1.12;-1.12	5.42	4.31	0.51392	.	0.044361	0.85682	D	0.000000	T	0.59018	0.2163	N	0.16903	0.455	0.23271	N	0.99801	B;P;B	0.34546	0.004;0.456;0.066	B;B;B	0.32928	0.014;0.115;0.155	T	0.55335	-0.8157	10	0.56958	D	0.05	.	6.8891	0.24220	0.2455:0.0:0.7545:0.0	.	1075;1035;1027	Q9ULB1-3;F8WB18;A7E294	.;.;.	I	44;1075;1035;1027;1035;1076;1027;1035	ENSP00000385580:T44I;ENSP00000385142:T1075I;ENSP00000384311:T1035I;ENSP00000434015:T1027I;ENSP00000385017:T1035I;ENSP00000385434:T1027I;ENSP00000385681:T1035I	ENSP00000385017:T1035I	T	-	2	0	NRXN1	50553080	1.000000	0.71417	0.988000	0.46212	0.973000	0.67179	4.448000	0.60027	2.691000	0.91804	0.655000	0.94253	ACA		0.403	NRXN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325291.2		
RTN4	57142	broad.mit.edu	37	2	55252692	55252692	+	Missense_Mutation	SNP	G	G	C	rs144867063	byFrequency	TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	C	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr2:55252692G>C	ENST00000337526.6	-	3	2786	c.2543C>G	c.(2542-2544)tCt>tGt	p.S848C	RTN4_ENST00000405240.1_Missense_Mutation_p.S642C|RTN4_ENST00000404909.1_Missense_Mutation_p.S642C|RTN4_ENST00000354474.6_Missense_Mutation_p.S616C|RTN4_ENST00000357732.4_Intron|RTN4_ENST00000394611.2_Missense_Mutation_p.S642C|RTN4_ENST00000317610.7_Intron|RTN4_ENST00000357376.3_Missense_Mutation_p.S642C|RTN4_ENST00000402434.2_Intron	NM_020532.4	NP_065393.1	Q9NQC3	RTN4_HUMAN	reticulon 4	848					angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|axonal fasciculation (GO:0007413)|cardiac epithelial to mesenchymal transition (GO:0060317)|cerebral cortex radial glia guided migration (GO:0021801)|endoplasmic reticulum tubular network organization (GO:0071786)|negative regulation of axon extension (GO:0030517)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell growth (GO:0030308)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of apoptotic process (GO:0042981)|regulation of axonogenesis (GO:0050770)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of cell migration (GO:0030334)	cell projection (GO:0042995)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of endoplasmic reticulum membrane (GO:0030176)|intracellular (GO:0005622)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)	p.S642C(1)		NS(2)|breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(11)|lung(9)|ovary(2)|prostate(1)|skin(1)|stomach(1)	36						TGCTTCCTTAGAAATAAATAA	0.338													G|||	7	0.00139776	0.0053	0.0	5008	,	,		19160	0.0		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	ovary(1)	2						G	CYS/SER,,,CYS/SER	21,4383	25.3+/-52.1	1,19,2182	46.0	48.0	47.0		2543,,,1925	4.6	0.8	2	dbSNP_134	47	0,8596		0,0,4298	yes	missense,intron,intron,missense	RTN4	NM_020532.4,NM_153828.2,NM_207520.1,NM_207521.1	112,,,112	1,19,6480	CC,CG,GG		0.0,0.4768,0.1615	probably-damaging,,,probably-damaging	848/1193,,,642/987	55252692	21,12979	2202	4298	6500	55106196	SO:0001583	missense	57142			AF087901	CCDS1851.1, CCDS1852.1, CCDS42683.1, CCDS42684.1, CCDS42685.1	2p14-p13	2008-05-23			ENSG00000115310	ENSG00000115310			14085	protein-coding gene	gene with protein product		604475				10667797, 10773680	Standard	NM_020532		Approved	NSP-CL, KIAA0886, NOGO, ASY	uc002rye.3	Q9NQC3	OTTHUMG00000129337	ENST00000337526.6:c.2543C>G	2.37:g.55252692G>C	ENSP00000337838:p.Ser848Cys		55106196	O94962|Q7L7Q5|Q7L7Q6|Q7L7Q8|Q8IUA4|Q96B16|Q9BXG5|Q9H212|Q9H3I3|Q9UQ42|Q9Y293|Q9Y2Y7|Q9Y5U6	Missense_Mutation	SNP	ENST00000337526.6	37	CCDS42684.1	2	9.157509157509158E-4	2	0.0040650406504065045	0	0.0	0	0.0	0	0.0	G	16.51	3.143857	0.57044	0.004768	0.0	ENSG00000115310	ENST00000405240;ENST00000357376;ENST00000337526;ENST00000394611;ENST00000404909;ENST00000354474	T;T;T;T;T;T	0.23552	1.9;1.9;1.9;1.9;1.9;1.93	5.45	4.56	0.56223	.	1.697110	0.02987	N	0.146379	T	0.42832	0.1220	L	0.43152	1.355	0.29850	N	0.828543	D	0.62365	0.991	P	0.52710	0.707	T	0.49173	-0.8967	10	0.72032	D	0.01	-2.5692	16.1142	0.81289	0.0:0.1341:0.8659:0.0	.	848	Q9NQC3	RTN4_HUMAN	C	642;642;848;642;642;616	ENSP00000384471:S642C;ENSP00000349944:S642C;ENSP00000337838:S848C;ENSP00000378109:S642C;ENSP00000385650:S642C;ENSP00000346465:S616C	ENSP00000337838:S848C	S	-	2	0	RTN4	55106196	1.000000	0.71417	0.842000	0.33263	0.611000	0.37282	3.149000	0.50655	1.235000	0.43724	0.655000	0.94253	TCT		0.338	RTN4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251484.1		
ERMN	57471	broad.mit.edu	37	2	158178234	158178234	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr2:158178234G>A	ENST00000410096.1	-	3	695	c.404C>T	c.(403-405)aCt>aTt	p.T135I	ERMN_ENST00000535935.1_Missense_Mutation_p.T29I|ERMN_ENST00000397283.2_Missense_Mutation_p.T148I|ERMN_ENST00000420719.2_Missense_Mutation_p.T115I|ERMN_ENST00000409216.1_3'UTR	NM_020711.1	NP_065762.1	Q8TAM6	ERMIN_HUMAN	ermin, ERM-like protein	135					actin filament organization (GO:0007015)|morphogenesis of a branching structure (GO:0001763)|regulation of cell projection organization (GO:0031344)|regulation of cell shape (GO:0008360)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|internode region of axon (GO:0033269)|myelin sheath (GO:0043209)|neuronal cell body (GO:0043025)|paranode region of axon (GO:0033270)		p.T148I(1)		endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|skin(1)	12						AGGCTGCTCAGTAATCCTCTC	0.458																																																1	Substitution - Missense(1)	ovary(1)	2											103.0	98.0	100.0					2																	158178234		1909	4126	6035	157886480	SO:0001583	missense	57471			AB033015	CCDS42764.1, CCDS46431.1	2q24	2008-02-05	2008-01-15	2008-01-15	ENSG00000136541	ENSG00000136541			29208	protein-coding gene	gene with protein product	"""juxtanodin"", ""ermin"""	610072	"""KIAA1189"""	KIAA1189		16051705, 16421295	Standard	NM_020711		Approved	JN, ERMIN	uc002tzi.3	Q8TAM6	OTTHUMG00000153843	ENST00000410096.1:c.404C>T	2.37:g.158178234G>A	ENSP00000387047:p.Thr135Ile		157886480	B4DKA6|Q9ULN1	Missense_Mutation	SNP	ENST00000410096.1	37	CCDS46431.1	.	.	.	.	.	.	.	.	.	.	G	0.016	-1.524586	0.00959	.	.	ENSG00000136541	ENST00000410096;ENST00000397283;ENST00000535935;ENST00000420719;ENST00000420317;ENST00000411762	.	.	.	5.77	-0.835	0.10775	.	1.619920	0.03004	N	0.148536	T	0.20170	0.0485	N	0.08118	0	0.09310	N	1	B;B;B	0.13145	0.002;0.007;0.002	B;B;B	0.06405	0.001;0.002;0.002	T	0.25813	-1.0121	9	0.54805	T	0.06	-0.3165	5.753	0.18158	0.3044:0.2715:0.424:0.0	.	115;148;135	B4DIZ1;Q8TAM6-2;Q8TAM6	.;.;ERMIN_HUMAN	I	135;148;29;115;135;135	.	ENSP00000380453:T148I	T	-	2	0	ERMN	157886480	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.529000	0.06186	0.014000	0.14944	-0.305000	0.09177	ACT		0.458	ERMN-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332659.1	NM_001009959	
GAD1	2571	broad.mit.edu	37	2	171687500	171687500	+	Missense_Mutation	SNP	A	A	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	T	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr2:171687500A>T	ENST00000358196.3	+	5	895	c.345A>T	c.(343-345)caA>caT	p.Q115H	GAD1_ENST00000344257.5_Missense_Mutation_p.Q115H|GAD1_ENST00000375272.1_Missense_Mutation_p.Q115H|GAD1_ENST00000429023.1_3'UTR	NM_000817.2	NP_000808.2	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 (brain, 67kDa)	115					gamma-aminobutyric acid biosynthetic process (GO:0009449)|glutamate catabolic process (GO:0006538)|glutamate decarboxylation to succinate (GO:0006540)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|protein-pyridoxal-5-phosphate linkage (GO:0018352)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)	clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|pyridoxal phosphate binding (GO:0030170)	p.Q115H(1)		endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|lung(15)|ovary(1)|urinary_tract(2)	35						AAACCGTGCAATTCCTCCTGG	0.498																																																1	Substitution - Missense(1)	ovary(1)	2											94.0	82.0	86.0					2																	171687500		2203	4300	6503	171395746	SO:0001583	missense	2571				CCDS2239.1, CCDS2240.1	2q31	2008-02-05	2002-08-29		ENSG00000128683	ENSG00000128683	4.1.1.15		4092	protein-coding gene	gene with protein product		605363	"""glutamate decarboxylase 1 (brain, 67kD)"""	GAD		1549570	Standard	XM_005246443		Approved		uc002ugi.3	Q99259	OTTHUMG00000044175	ENST00000358196.3:c.345A>T	2.37:g.171687500A>T	ENSP00000350928:p.Gln115His		171395746	Q49AK1|Q53TQ7|Q9BU91|Q9UHH4	Missense_Mutation	SNP	ENST00000358196.3	37	CCDS2239.1	.	.	.	.	.	.	.	.	.	.	A	13.55	2.270044	0.40194	.	.	ENSG00000128683	ENST00000358196;ENST00000375272;ENST00000344257;ENST00000455008;ENST00000456864	T;T;T;D;T	0.83591	1.13;1.13;1.13;-1.74;-1.22	5.9	3.07	0.35406	Pyridoxal phosphate-dependent transferase, major domain (1);	0.000000	0.85682	D	0.000000	T	0.75576	0.3868	L	0.49350	1.555	0.80722	D	1	B;B	0.27910	0.003;0.193	B;B	0.15484	0.001;0.013	T	0.68812	-0.5310	10	0.42905	T	0.14	-15.6551	10.6492	0.45638	0.2467:0.0:0.7533:0.0	.	115;115	Q99259;Q99259-3	DCE1_HUMAN;.	H	115	ENSP00000350928:Q115H;ENSP00000364421:Q115H;ENSP00000341167:Q115H;ENSP00000405917:Q115H;ENSP00000394255:Q115H	ENSP00000341167:Q115H	Q	+	3	2	GAD1	171395746	1.000000	0.71417	1.000000	0.80357	0.416000	0.31233	2.714000	0.47202	0.406000	0.25560	-0.187000	0.12897	CAA		0.498	GAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102664.2		
BOK	666	broad.mit.edu	37	2	242501817	242501817	+	Missense_Mutation	SNP	T	T	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	C	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr2:242501817T>C	ENST00000318407.3	+	3	577	c.275T>C	c.(274-276)cTg>cCg	p.L92P		NM_032515.4	NP_115904.1	Q9UMX3	BOK_HUMAN	BCL2-related ovarian killer	92					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|brain development (GO:0007420)|cell proliferation (GO:0008283)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|male gonad development (GO:0008584)|neuron apoptotic process (GO:0051402)|oligodendrocyte differentiation (GO:0048709)|positive regulation of apoptotic process (GO:0043065)|positive regulation of execution phase of apoptosis (GO:1900119)	cytoplasm (GO:0005737)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)	p.L92P(1)		large_intestine(1)|lung(3)|ovary(1)	5		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.04e-33)|all cancers(36;7.87e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.52e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.64e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0835)		GCGCGTCAGCTGCACATCTCC	0.637																																																1	Substitution - Missense(1)	ovary(1)	2											115.0	84.0	94.0					2																	242501817		2203	4300	6503	242150490	SO:0001583	missense	666			AF174487	CCDS2550.1	2q37.3	2008-05-22			ENSG00000176720	ENSG00000176720			1087	protein-coding gene	gene with protein product		605404				9356461, 11034351, 15102863	Standard	NM_032515		Approved	BCL2L9, BOKL, MGC4631	uc002wbq.3	Q9UMX3	OTTHUMG00000133411	ENST00000318407.3:c.275T>C	2.37:g.242501817T>C	ENSP00000314132:p.Leu92Pro		242150490		Missense_Mutation	SNP	ENST00000318407.3	37	CCDS2550.1	.	.	.	.	.	.	.	.	.	.	T	17.78	3.474310	0.63737	.	.	ENSG00000176720	ENST00000318407	T	0.57436	0.4	4.97	4.97	0.65823	Apoptosis regulator, Bcl2-like (1);Apoptosis regulator, Bcl-2, BH (2);	0.000000	0.64402	D	0.000003	T	0.71913	0.3396	M	0.76574	2.34	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.76075	-0.3092	10	0.72032	D	0.01	-15.3267	14.643	0.68739	0.0:0.0:0.0:1.0	.	92	Q9UMX3	BOK_HUMAN	P	92	ENSP00000314132:L92P	ENSP00000314132:L92P	L	+	2	0	BOK	242150490	1.000000	0.71417	1.000000	0.80357	0.230000	0.25150	7.378000	0.79679	1.851000	0.53745	0.533000	0.62120	CTG		0.637	BOK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257268.2	NM_032515	
GHRH	2691	broad.mit.edu	37	20	35884854	35884854	+	Missense_Mutation	SNP	A	A	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	C	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr20:35884854A>C	ENST00000373614.2	-	3	242	c.131T>G	c.(130-132)gTg>gGg	p.V44G	GHRH_ENST00000373611.2_Missense_Mutation_p.V44G|GHRH_ENST00000237527.3_Missense_Mutation_p.V44G			P01286	SLIB_HUMAN	growth hormone releasing hormone	44					adenohypophysis development (GO:0021984)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|cAMP-mediated signaling (GO:0019933)|cell-cell signaling (GO:0007267)|growth hormone secretion (GO:0030252)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cell proliferation (GO:0008284)|positive regulation of circadian sleep/wake cycle, REM sleep (GO:0046005)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of multicellular organism growth (GO:0040018)|response to food (GO:0032094)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|terminal bouton (GO:0043195)	growth hormone-releasing hormone activity (GO:0016608)|growth hormone-releasing hormone receptor binding (GO:0031770)	p.V44G(1)		lung(1)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	4		Myeloproliferative disorder(115;0.00878)				CTGGCCCAGCACCTTCCGGTA	0.622																																																1	Substitution - Missense(1)	ovary(1)	20											64.0	56.0	59.0					20																	35884854		2203	4300	6503	35318268	SO:0001583	missense	2691				CCDS13292.1, CCDS54460.1	20q11.2	2014-01-30			ENSG00000118702	ENSG00000118702		"""Endogenous ligands"""	4265	protein-coding gene	gene with protein product	"""sermorelin"", ""somatocrinin"", ""somatoliberin"""	139190		GHRF		3918305	Standard	NM_021081		Approved		uc002xgr.3	P01286	OTTHUMG00000032413	ENST00000373614.2:c.131T>G	20.37:g.35884854A>C	ENSP00000362716:p.Val44Gly		35318268	Q4KN10|Q5JYR1	Missense_Mutation	SNP	ENST00000373614.2	37	CCDS13292.1	.	.	.	.	.	.	.	.	.	.	A	22.9	4.348463	0.82132	.	.	ENSG00000118702	ENST00000373614;ENST00000237527;ENST00000373611	T;T;T	0.34859	1.34;1.34;1.34	5.0	5.0	0.66597	Glucagon/GIP/secretin/VIP (3);	0.662303	0.13349	N	0.394578	T	0.58452	0.2123	M	0.75615	2.305	0.54753	D	0.999989	D;D	0.69078	0.997;0.997	D;D	0.68621	0.931;0.959	T	0.59198	-0.7499	10	0.87932	D	0	-22.6382	11.0293	0.47763	1.0:0.0:0.0:0.0	.	44;44	P01286-2;P01286	.;SLIB_HUMAN	G	44	ENSP00000362716:V44G;ENSP00000237527:V44G;ENSP00000362713:V44G	ENSP00000237527:V44G	V	-	2	0	GHRH	35318268	1.000000	0.71417	0.999000	0.59377	0.996000	0.88848	6.649000	0.74364	2.105000	0.64084	0.523000	0.50628	GTG		0.622	GHRH-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079094.2		
TMEM50B	757	broad.mit.edu	37	21	34828045	34828045	+	Silent	SNP	A	A	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	C	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr21:34828045A>C	ENST00000542230.2	-	6	634	c.420T>G	c.(418-420)ctT>ctG	p.L140L		NM_006134.6	NP_006125.2	P56557	TM50B_HUMAN	transmembrane protein 50B	140						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)		p.L140L(1)		breast(1)|kidney(1)|ovary(1)|skin(1)	4						TAAAAAATATAAGTGCATTTT	0.318																																																1	Substitution - coding silent(1)	ovary(1)	21											98.0	97.0	97.0					21																	34828045		2202	4298	6500	33749915	SO:0001819	synonymous_variant	757			AF045606	CCDS13625.1	21q22.1	2008-07-29	2005-06-02	2005-06-02	ENSG00000142188	ENSG00000142188			1280	protein-coding gene	gene with protein product			"""chromosome 21 open reading frame 4"""	C21orf4			Standard	NR_040016		Approved		uc002yrs.2	P56557	OTTHUMG00000065286	ENST00000542230.2:c.420T>G	21.37:g.34828045A>C			33749915	B2R4L4|D3DSF1|O60537|Q5PY47	Silent	SNP	ENST00000542230.2	37	CCDS13625.1																																																																																				0.318	TMEM50B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140080.5		
C21orf33	8209	broad.mit.edu	37	21	45556009	45556009	+	Missense_Mutation	SNP	C	C	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr21:45556009C>A	ENST00000291577.6	+	3	355	c.262C>A	c.(262-264)Cac>Aac	p.H88N	C21orf33_ENST00000493883.1_3'UTR|C21orf33_ENST00000427803.2_Missense_Mutation_p.H88N|C21orf33_ENST00000348499.5_Missense_Mutation_p.H88N	NM_004649.6	NP_004640	P30042	ES1_HUMAN	chromosome 21 open reading frame 33	88						mitochondrion (GO:0005739)		p.H88N(1)		NS(1)|endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|skin(1)	8				STAD - Stomach adenocarcinoma(101;0.168)|Colorectal(79;0.191)		CCCTCAGATGCACGTGATTGA	0.587																																																1	Substitution - Missense(1)	ovary(1)	21											89.0	76.0	81.0					21																	45556009		2203	4300	6503	44380437	SO:0001583	missense	8209			Y07572	CCDS33580.1, CCDS33581.1	21q22.3	2008-07-29			ENSG00000160221	ENSG00000160221			1273	protein-coding gene	gene with protein product		601659				9150728, 8975701	Standard	NM_004649		Approved	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I	uc002zec.4	P30042	OTTHUMG00000086916	ENST00000291577.6:c.262C>A	21.37:g.45556009C>A	ENSP00000291577:p.His88Asn		44380437	A6NFJ6|A6NJY7|O00650|O00660|O15011|O15012|P55346|P78474|Q92505|Q92507	Missense_Mutation	SNP	ENST00000291577.6	37	CCDS33580.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	24.7|24.7|24.7	4.564001|4.564001|4.564001	0.86335|0.86335|0.86335	.|.|.	.|.|.	ENSG00000160221|ENSG00000160221|ENSG00000248354;ENSG00000160221;ENSG00000160221;ENSG00000160221;ENSG00000160221	ENST00000449622|ENST00000419699|ENST00000433711;ENST00000291577;ENST00000427803;ENST00000348499;ENST00000389690	.|.|T;T;T;T	.|.|0.31247	.|.|1.5;1.5;1.5;1.5	4.93|4.93|4.93	4.93|4.93|4.93	0.64822|0.64822|0.64822	.|.|ThiJ/PfpI (1);	.|.|0.051197	.|.|0.85682	.|.|D	.|.|0.000000	T|.|T	0.62551|.|0.62551	0.2437|.|0.2437	M|M|M	0.88241|0.88241|0.88241	2.94|2.94|2.94	0.58432|0.58432|0.58432	D|D|D	0.999997|0.999997|0.999997	.|.|D;D	.|.|0.60575	.|.|0.985;0.988	.|.|D;D	.|.|0.67382	.|.|0.919;0.951	T|.|T	0.71203|.|0.71203	-0.4662|.|-0.4662	5|.|10	.|.|0.72032	.|.|D	.|.|0.01	-24.1491|-24.1491|-24.1491	18.5529|18.5529|18.5529	0.91072|0.91072|0.91072	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	.|.|88;88	.|.|P30042-2;P30042	.|.|.;ES1_HUMAN	E|X|N	49|3|67;88;88;88;61	.|.|ENSP00000291577:H88N;ENSP00000396655:H88N;ENSP00000344901:H88N;ENSP00000374340:H61N	.|.|ENSP00000415634:H67N	A|C|H	+|+|+	2|3|1	0|2|0	C21orf33|C21orf33|C21orf33;AP001055.7	44380437|44380437|44380437	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.984000|0.984000|0.984000	0.73092|0.73092|0.73092	5.594000|5.594000|5.594000	0.67557|0.67557|0.67557	2.449000|2.449000|2.449000	0.82847|0.82847|0.82847	0.655000|0.655000|0.655000	0.94253|0.94253|0.94253	GCA|TGC|CAC		0.587	C21orf33-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000195824.1	NM_004649	
CYTH4	27128	broad.mit.edu	37	22	37705313	37705313	+	Missense_Mutation	SNP	C	C	G	rs535579793		TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	G	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr22:37705313C>G	ENST00000248901.6	+	9	944	c.757C>G	c.(757-759)Ctc>Gtc	p.L253V		NM_013385.3	NP_037517.1	Q9UIA0	CYH4_HUMAN	cytohesin 4	253					positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)|regulation of cell adhesion (GO:0030155)	plasma membrane (GO:0005886)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|lipid binding (GO:0008289)	p.L253V(1)		breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(7)|ovary(2)|stomach(1)	15						CGGCAATGACCTCACTCACAC	0.567																																																1	Substitution - Missense(1)	ovary(1)	22											222.0	162.0	182.0					22																	37705313		2203	4300	6503	36035259	SO:0001583	missense	27128			AF075458	CCDS13946.1	22q12.3-q13.1	2014-05-02	2008-08-14	2008-08-14	ENSG00000100055	ENSG00000100055		"""Pleckstrin homology (PH) domain containing"""	9505	protein-coding gene	gene with protein product		606514	"""pleckstrin homology, Sec7 and coiled/coil domains 4"", ""pleckstrin homology, Sec7 and coiled-coil domains 4"""	PSCD4		10591208	Standard	NM_013385		Approved	CYT4, cytohesin-4	uc003arf.3	Q9UIA0	OTTHUMG00000150562	ENST00000248901.6:c.757C>G	22.37:g.37705313C>G	ENSP00000248901:p.Leu253Val		36035259	Q5R3F9|Q9UGT6	Missense_Mutation	SNP	ENST00000248901.6	37	CCDS13946.1	.	.	.	.	.	.	.	.	.	.	C	17.46	3.394601	0.62066	.	.	ENSG00000100055	ENST00000248901	T	0.08102	3.13	4.39	4.39	0.52855	.	0.000000	0.85682	D	0.000000	T	0.11324	0.0276	M	0.64404	1.975	0.80722	D	1	P	0.39116	0.66	B	0.37047	0.24	T	0.17319	-1.0373	10	0.22706	T	0.39	.	16.0929	0.81102	0.0:1.0:0.0:0.0	.	253	Q9UIA0	CYH4_HUMAN	V	253	ENSP00000248901:L253V	ENSP00000248901:L253V	L	+	1	0	CYTH4	36035259	1.000000	0.71417	1.000000	0.80357	0.920000	0.55202	5.931000	0.70113	2.150000	0.67090	0.561000	0.74099	CTC		0.567	CYTH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318917.1		
ITPR1	3708	broad.mit.edu	37	3	4703822	4703822	+	Silent	SNP	T	T	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	A	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr3:4703822T>A	ENST00000443694.2	+	12	1263	c.1263T>A	c.(1261-1263)tcT>tcA	p.S421S	ITPR1_ENST00000354582.6_Silent_p.S436S|ITPR1_ENST00000357086.4_Silent_p.S436S|ITPR1_ENST00000456211.2_Silent_p.S421S|ITPR1_ENST00000423119.2_Silent_p.S436S|ITPR1_ENST00000302640.8_Silent_p.S421S|ITPR1_ENST00000544951.1_Intron			Q14643	ITPR1_HUMAN	inositol 1,4,5-trisphosphate receptor, type 1	436	MIR 5. {ECO:0000255|PROSITE- ProRule:PRU00131}.				activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|negative regulation of calcium-mediated signaling (GO:0050849)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|post-embryonic development (GO:0009791)|regulation of insulin secretion (GO:0050796)|release of sequestered calcium ion into cytosol (GO:0051209)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|voluntary musculoskeletal movement (GO:0050882)	calcineurin complex (GO:0005955)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear inner membrane (GO:0005637)|nucleolus (GO:0005730)|platelet dense granule membrane (GO:0031088)|platelet dense tubular network (GO:0031094)|platelet dense tubular network membrane (GO:0031095)|postsynaptic density (GO:0014069)|sarcoplasmic reticulum (GO:0016529)	calcium channel inhibitor activity (GO:0019855)|calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|intracellular ligand-gated calcium channel activity (GO:0005218)|phosphatidylinositol binding (GO:0035091)	p.S421S(1)		NS(1)|autonomic_ganglia(1)|breast(10)|endometrium(15)|kidney(6)|large_intestine(27)|liver(1)|lung(27)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|urinary_tract(2)	106				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)	Caffeine(DB00201)	TTCCGGTTTCTCCTGCTGAAG	0.502																																																1	Substitution - coding silent(1)	ovary(1)	3											114.0	112.0	112.0					3																	4703822		1969	4151	6120	4678822	SO:0001819	synonymous_variant	3708			D26070	CCDS46740.1, CCDS46740.2, CCDS54550.1, CCDS54551.1	3p26.1	2014-06-12	2011-04-28			ENSG00000150995		"""Ion channels / Inositol triphosphate receptors"""	6180	protein-coding gene	gene with protein product	"""protein phosphatase 1, regulatory subunit 94"""	147265	"""spinocerebellar ataxia 15"", ""spinocerebellar ataxia 16"", ""spinocerebellar ataxia 29"""	SCA15, SCA16, SCA29		7945203, 7500840, 17590087, 17932120, 22986007	Standard	NM_001099952		Approved	Insp3r1, IP3R1, ACV, PPP1R94	uc003bqc.3	Q14643		ENST00000443694.2:c.1263T>A	3.37:g.4703822T>A			4678822	E7EPX7|E9PDE9|Q14660|Q99897	Silent	SNP	ENST00000443694.2	37	CCDS54551.1																																																																																				0.502	ITPR1-004	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337982.3	NM_002222	
GRM7	2917	broad.mit.edu	37	3	7620140	7620140	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr3:7620140G>A	ENST00000357716.4	+	8	1821	c.1547G>A	c.(1546-1548)cGa>cAa	p.R516Q	GRM7_ENST00000402647.2_Missense_Mutation_p.R516Q|GRM7_ENST00000458641.2_3'UTR|GRM7_ENST00000389336.4_Missense_Mutation_p.R516Q|GRM7_ENST00000486284.1_Missense_Mutation_p.R516Q|GRM7_ENST00000403881.1_Missense_Mutation_p.R516Q	NM_000844.3	NP_000835.1	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7	516					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|adult behavior (GO:0030534)|conditioned taste aversion (GO:0001661)|multicellular organismal response to stress (GO:0033555)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of cAMP biosynthetic process (GO:0030818)|negative regulation of glutamate secretion (GO:0014050)|regulation of cyclase activity (GO:0031279)|regulation of synaptic transmission, glutamatergic (GO:0051966)|sensory perception of smell (GO:0007608)|sensory perception of sound (GO:0007605)|short-term memory (GO:0007614)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	asymmetric synapse (GO:0032279)|axon (GO:0030424)|cell cortex (GO:0005938)|dendrite (GO:0030425)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)|receptor complex (GO:0043235)	adenylate cyclase inhibitor activity (GO:0010855)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|glutamate binding (GO:0016595)|glutamate receptor activity (GO:0008066)|group III metabotropic glutamate receptor activity (GO:0001642)|PDZ domain binding (GO:0030165)|serine binding (GO:0070905)|voltage-gated calcium channel activity (GO:0005245)	p.R516Q(1)		breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(35)|ovary(4)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	76						AAAGGAGTCCGAGAGATACCC	0.458																																																1	Substitution - Missense(1)	ovary(1)	3											71.0	70.0	70.0					3																	7620140		2203	4300	6503	7595140	SO:0001583	missense	2917			U92458	CCDS43042.1	3p26-p25	2014-06-12			ENSG00000196277	ENSG00000196277		"""GPCR / Class C : Glutamate receptors, metabotropic"", ""Glutamate receptors"""	4599	protein-coding gene	gene with protein product	"""protein phosphatase 1, regulatory subunit 87"""	604101				8288585, 8840028	Standard	NM_000844		Approved	GLUR7, GPRC1G, mGlu7, MGLUR7, PPP1R87	uc003bql.2	Q14831	OTTHUMG00000125549	ENST00000357716.4:c.1547G>A	3.37:g.7620140G>A	ENSP00000350348:p.Arg516Gln		7595140	Q8NFS2|Q8NFS3|Q8NFS4	Missense_Mutation	SNP	ENST00000357716.4	37	CCDS43042.1	.	.	.	.	.	.	.	.	.	.	G	0.012	-1.663295	0.00772	.	.	ENSG00000196277	ENST00000357716;ENST00000486284;ENST00000389336;ENST00000403881;ENST00000525747;ENST00000402647;ENST00000413492;ENST00000445087	D;D;D;D;D;T	0.88975	-2.41;-2.45;-2.44;-2.44;-2.45;-0.92	5.71	4.83	0.62350	.	0.133103	0.51477	D	0.000089	T	0.81331	0.4800	L	0.28344	0.845	0.34292	D	0.683344	B;B;B;B;B	0.12630	0.006;0.002;0.003;0.001;0.003	B;B;B;B;B	0.09377	0.004;0.001;0.0;0.0;0.004	T	0.77935	-0.2401	10	0.11182	T	0.66	.	15.5544	0.76180	0.0:0.1384:0.8616:0.0	.	516;516;271;516;516	B7ZKK0;Q14831-5;Q59G95;Q14831;Q14831-2	.;.;.;GRM7_HUMAN;.	Q	516;516;516;516;516;516;516;173	ENSP00000350348:R516Q;ENSP00000417536:R516Q;ENSP00000373987:R516Q;ENSP00000385664:R516Q;ENSP00000384585:R516Q;ENSP00000395035:R173Q	ENSP00000350348:R516Q	R	+	2	0	GRM7	7595140	0.989000	0.36119	0.957000	0.39632	0.005000	0.04900	2.947000	0.49058	1.418000	0.47098	-0.165000	0.13383	CGA		0.458	GRM7-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000246895.3	NM_000844	
TTC21A	199223	broad.mit.edu	37	3	39170331	39170331	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr3:39170331G>A	ENST00000431162.2	+	14	1959	c.1825G>A	c.(1825-1827)Ggc>Agc	p.G609S	TTC21A_ENST00000301819.6_Missense_Mutation_p.G610S|TTC21A_ENST00000440121.1_Missense_Mutation_p.G561S			Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A	609								p.G610S(1)		NS(1)|breast(2)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(9)|lung(23)|ovary(1)|prostate(1)|skin(3)	50				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		GAAGGAAGAAGGCAGAAAGTT	0.537																																																1	Substitution - Missense(1)	ovary(1)	3											87.0	88.0	87.0					3																	39170331		1928	4154	6082	39145335	SO:0001583	missense	199223			AJ487015	CCDS43068.1, CCDS46800.1, CCDS43068.2	3p22.2	2014-09-04			ENSG00000168026	ENSG00000168026		"""Tetratricopeptide (TTC) repeat domain containing"""	30761	protein-coding gene	gene with protein product		611430					Standard	NM_145755		Approved	STI2	uc003cjc.2	Q8NDW8	OTTHUMG00000155973	ENST00000431162.2:c.1825G>A	3.37:g.39170331G>A	ENSP00000398211:p.Gly609Ser		39145335	A1L388|B4DYF6|B4DYJ3|D3YTE7|D4PHA5|Q6P5W8|Q8N7G5|Q8NA02	Missense_Mutation	SNP	ENST00000431162.2	37	CCDS46800.1	.	.	.	.	.	.	.	.	.	.	G	2.484	-0.319004	0.05386	.	.	ENSG00000168026	ENST00000301819;ENST00000424305;ENST00000431162;ENST00000440121	T;T;T	0.61392	0.11;0.11;0.24	5.17	0.138	0.14793	Tetratricopeptide-like helical (1);	0.931884	0.09035	N	0.858149	T	0.38772	0.1053	N	0.21583	0.68	0.09310	N	1	B;B;B	0.12013	0.001;0.005;0.003	B;B;B	0.12156	0.002;0.007;0.003	T	0.23013	-1.0200	10	0.09843	T	0.71	-2.3165	10.1282	0.42663	0.4625:0.0:0.5375:0.0	.	561;610;609	Q8NDW8-6;Q8NDW8-7;Q8NDW8	.;.;TT21A_HUMAN	S	610;592;609;561	ENSP00000301819:G610S;ENSP00000398211:G609S;ENSP00000410882:G561S	ENSP00000301819:G610S	G	+	1	0	TTC21A	39145335	0.012000	0.17670	0.720000	0.30636	0.223000	0.24884	-0.022000	0.12480	0.026000	0.15269	-0.471000	0.05019	GGC		0.537	TTC21A-021	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000377829.1	NM_145755	
RTP1	132112	broad.mit.edu	37	3	186917744	186917744	+	Silent	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr3:186917744G>A	ENST00000312295.4	+	2	708	c.678G>A	c.(676-678)tcG>tcA	p.S226S	RP11-208N14.4_ENST00000356133.3_RNA	NM_153708.2	NP_714919.2	P59025	RTP1_HUMAN	receptor (chemosensory) transporter protein 1	226					protein insertion into membrane (GO:0051205)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	olfactory receptor binding (GO:0031849)	p.S226S(1)		breast(2)|endometrium(4)|large_intestine(5)|lung(6)|ovary(3)|skin(2)	22	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		CCACCAAGTCGCAGGACCAGA	0.627																																																1	Substitution - coding silent(1)	ovary(1)	3											59.0	56.0	57.0					3																	186917744		2203	4300	6503	188400438	SO:0001819	synonymous_variant	132112			BC034744	CCDS3287.2	3q27.3	2014-02-20	2006-11-21		ENSG00000175077	ENSG00000175077		"""Receptor transporter proteins"""	28580	protein-coding gene	gene with protein product	"""receptor transporting protein 1"", ""zinc finger, 3CxxC-type 1"""	609137	"""receptor transporter protein 1"""			16271481, 15550249, 16720576	Standard	NM_153708		Approved	MGC35450, Z3CXXC1	uc003frg.3	P59025	OTTHUMG00000149886	ENST00000312295.4:c.678G>A	3.37:g.186917744G>A			188400438		Silent	SNP	ENST00000312295.4	37	CCDS3287.2																																																																																				0.627	RTP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313731.2	NM_153708	
TRMT10A	93587	broad.mit.edu	37	4	100470496	100470496	+	Missense_Mutation	SNP	C	C	G			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	G	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Sequenom			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr4:100470496C>G	ENST00000273962.3	-	8	1081	c.769G>C	c.(769-771)Gaa>Caa	p.E257Q	TRMT10A_ENST00000394876.2_Missense_Mutation_p.E257Q|TRMT10A_ENST00000394877.3_Missense_Mutation_p.E257Q	NM_152292.4	NP_689505.1	Q8TBZ6	TM10A_HUMAN	tRNA methyltransferase 10 homolog A (S. cerevisiae)	257	SAM-dependent MTase TRM10-type. {ECO:0000255|PROSITE-ProRule:PRU01012}.				magnesium ion homeostasis (GO:0010960)	extracellular vesicular exosome (GO:0070062)	methyltransferase activity (GO:0008168)|poly(A) RNA binding (GO:0044822)	p.E257Q(1)									TCCAGGTATTCCAGAATAATT	0.393																																																1	Substitution - Missense(1)	ovary(1)	4											83.0	83.0	83.0					4																	100470496		2203	4300	6503	100689519	SO:0001583	missense	93587			BC028373	CCDS3650.1	4q23	2012-06-28	2012-06-28	2012-06-28	ENSG00000145331	ENSG00000145331			28403	protein-coding gene	gene with protein product			"""RNA (guanine-9-) methyltransferase domain containing 2"""	RG9MTD2		12477932	Standard	NM_152292		Approved	MGC27034, TRM10	uc003hva.4	Q8TBZ6	OTTHUMG00000131025	ENST00000273962.3:c.769G>C	4.37:g.100470496C>G	ENSP00000273962:p.Glu257Gln		100689519	B2R8X7|Q9Y2T9	Missense_Mutation	SNP	ENST00000273962.3	37	CCDS3650.1	.	.	.	.	.	.	.	.	.	.	C	19.18	3.778107	0.70107	.	.	ENSG00000145331	ENST00000394877;ENST00000273962;ENST00000394876	T;T;T	0.21734	1.99;1.99;1.99	5.94	5.94	0.96194	.	0.213391	0.45606	D	0.000352	T	0.19406	0.0466	N	0.24115	0.695	0.42515	D	0.992989	B	0.22683	0.073	B	0.29663	0.105	T	0.08006	-1.0743	10	0.21540	T	0.41	-28.5877	20.3591	0.98849	0.0:1.0:0.0:0.0	.	257	Q8TBZ6	RG9D2_HUMAN	Q	257	ENSP00000378343:E257Q;ENSP00000273962:E257Q;ENSP00000378342:E257Q	ENSP00000273962:E257Q	E	-	1	0	RG9MTD2	100689519	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	4.459000	0.60102	2.816000	0.96949	0.561000	0.74099	GAA		0.393	TRMT10A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253668.1	NM_152292	
G3BP1	10146	broad.mit.edu	37	5	151179553	151179553	+	Missense_Mutation	SNP	C	C	G			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	G	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr5:151179553C>G	ENST00000394123.3	+	9	1092	c.947C>G	c.(946-948)cCc>cGc	p.P316R	G3BP1_ENST00000356245.3_Missense_Mutation_p.P316R|G3BP1_ENST00000543466.1_Missense_Mutation_p.P134R			Q13283	G3BP1_HUMAN	GTPase activating protein (SH3 domain) binding protein 1	316					ATP catabolic process (GO:0006200)|DNA duplex unwinding (GO:0032508)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|Ras protein signal transduction (GO:0007265)|transport (GO:0006810)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATP-dependent RNA helicase activity (GO:0004004)|DNA binding (GO:0003677)|endonuclease activity (GO:0004519)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)	p.P316R(1)		breast(1)|endometrium(5)|kidney(2)|large_intestine(6)|lung(9)|ovary(1)|skin(3)|urinary_tract(2)	29		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			CAAAGGGGACCCAGACCAAGT	0.448																																																1	Substitution - Missense(1)	ovary(1)	5											29.0	30.0	29.0					5																	151179553		2203	4300	6503	151159746	SO:0001583	missense	10146			BC006997	CCDS4319.1	5q33.1	2013-02-12	2006-11-01		ENSG00000145907	ENSG00000145907		"""RNA binding motif (RRM) containing"""	30292	protein-coding gene	gene with protein product	"""Ras-GTPase-activating protein SH3-domain-binding protein"""	608431				8649363, 9889278	Standard	NM_005754		Approved	HDH-VIII, G3BP	uc003lum.3	Q13283	OTTHUMG00000130123	ENST00000394123.3:c.947C>G	5.37:g.151179553C>G	ENSP00000377681:p.Pro316Arg		151159746	Q5HYE9	Missense_Mutation	SNP	ENST00000394123.3	37	CCDS4319.1	.	.	.	.	.	.	.	.	.	.	C	28.1	4.894147	0.91889	.	.	ENSG00000145907	ENST00000394123;ENST00000543466;ENST00000356245;ENST00000274596	T;T;T	0.75477	-0.76;-0.94;-0.76	5.29	5.29	0.74685	.	0.048044	0.85682	D	0.000000	D	0.86940	0.6054	M	0.79475	2.455	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.87410	0.2375	10	0.56958	D	0.05	-11.5939	19.3089	0.94177	0.0:1.0:0.0:0.0	.	316	Q13283	G3BP1_HUMAN	R	316;134;316;158	ENSP00000377681:P316R;ENSP00000445035:P134R;ENSP00000348578:P316R	ENSP00000274596:P158R	P	+	2	0	G3BP1	151159746	1.000000	0.71417	0.977000	0.42913	0.984000	0.73092	6.957000	0.76019	2.631000	0.89168	0.650000	0.86243	CCC		0.448	G3BP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252431.1	NM_005754	
ITK	3702	broad.mit.edu	37	5	156644898	156644898	+	Missense_Mutation	SNP	C	C	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr5:156644898C>T	ENST00000422843.3	+	5	628	c.476C>T	c.(475-477)cCt>cTt	p.P159L	CTB-4E7.1_ENST00000519375.1_RNA	NM_005546.3	NP_005537.3	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	159					activation of phospholipase C activity (GO:0007202)|adaptive immune response (GO:0002250)|cellular defense response (GO:0006968)|cytokine production (GO:0001816)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|interferon-gamma production (GO:0032609)|interleukin-4 production (GO:0032633)|intracellular signal transduction (GO:0035556)|NK T cell differentiation (GO:0001865)|peptidyl-tyrosine phosphorylation (GO:0018108)|signal transduction (GO:0007165)|T cell activation (GO:0042110)|T cell receptor signaling pathway (GO:0050852)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)	p.P159L(1)		breast(4)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(25)|ovary(8)|prostate(2)|skin(7)|stomach(2)|upper_aerodigestive_tract(1)	70	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)		Pazopanib(DB06589)	CCTCTTCCTCCTACTCCTGAA	0.507			T	SYK	peripheral T-cell lymphoma																																Esophageal Squamous(70;1378 1469 8785 19883)		Dom	yes		5	5q31-q32	3702	IL2-inducible T-cell kinase		L	1	Substitution - Missense(1)	ovary(1)	5											135.0	139.0	138.0					5																	156644898		2203	4300	6503	156577476	SO:0001583	missense	3702			D13720	CCDS4336.1	5q31-q32	2014-09-17			ENSG00000113263	ENSG00000113263		"""Pleckstrin homology (PH) domain containing"", ""SH2 domain containing"""	6171	protein-coding gene	gene with protein product		186973				8364206	Standard	NM_005546		Approved	EMT, PSCTK2, LYK	uc003lwo.1	Q08881	OTTHUMG00000130245	ENST00000422843.3:c.476C>T	5.37:g.156644898C>T	ENSP00000398655:p.Pro159Leu		156577476	B2R752|Q32ML7	Missense_Mutation	SNP	ENST00000422843.3	37	CCDS4336.1	.	.	.	.	.	.	.	.	.	.	C	17.46	3.394612	0.62066	.	.	ENSG00000113263	ENST00000521769;ENST00000422843	D;T	0.91011	-2.77;-1.01	5.01	5.01	0.66863	.	0.111999	0.64402	D	0.000009	D	0.93058	0.7790	M	0.84948	2.725	0.53005	D	0.999963	D	0.56521	0.976	P	0.49140	0.601	D	0.93863	0.7155	10	0.56958	D	0.05	.	15.253	0.73561	0.0:1.0:0.0:0.0	.	159	Q08881	ITK_HUMAN	L	34;159	ENSP00000430327:P34L;ENSP00000398655:P159L	ENSP00000398655:P159L	P	+	2	0	ITK	156577476	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	3.205000	0.51090	2.318000	0.78349	0.561000	0.74099	CCT		0.507	ITK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252569.2		
DOCK2	1794	broad.mit.edu	37	5	169435740	169435740	+	Missense_Mutation	SNP	G	G	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	C	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr5:169435740G>C	ENST00000256935.8	+	32	3302	c.3222G>C	c.(3220-3222)tgG>tgC	p.W1074C	DOCK2_ENST00000520908.1_Missense_Mutation_p.W566C|DOCK2_ENST00000523351.1_3'UTR|DOCK2_ENST00000540750.1_Missense_Mutation_p.W135C	NM_004946.2	NP_004937.1	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1074	Interaction with CRKL.				actin cytoskeleton organization (GO:0030036)|alpha-beta T cell proliferation (GO:0046633)|chemotaxis (GO:0006935)|establishment of T cell polarity (GO:0001768)|immunological synapse formation (GO:0001771)|macropinocytosis (GO:0044351)|membrane raft polarization (GO:0001766)|myeloid dendritic cell activation involved in immune response (GO:0002277)|negative thymic T cell selection (GO:0045060)|positive regulation of phagocytosis (GO:0050766)|positive thymic T cell selection (GO:0045059)|regulation of defense response to virus by virus (GO:0050690)|small GTPase mediated signal transduction (GO:0007264)|viral process (GO:0016032)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rac GTPase activator activity (GO:0030675)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|T cell receptor binding (GO:0042608)	p.W1074C(1)		NS(2)|breast(5)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(42)|liver(2)|lung(63)|ovary(5)|pancreas(3)|prostate(7)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)	160	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGATATGTGGTACAAGCTTG	0.498																																																1	Substitution - Missense(1)	ovary(1)	5											216.0	185.0	196.0					5																	169435740		2203	4300	6503	169368318	SO:0001583	missense	1794			BC016996	CCDS4371.1	5q35.1	2008-02-05			ENSG00000134516	ENSG00000134516			2988	protein-coding gene	gene with protein product		603122	"""dedicator of cyto-kinesis 2"""				Standard	NM_004946		Approved	KIAA0209	uc003maf.3	Q92608	OTTHUMG00000130437	ENST00000256935.8:c.3222G>C	5.37:g.169435740G>C	ENSP00000256935:p.Trp1074Cys		169368318	Q2M3I0|Q96AK7	Missense_Mutation	SNP	ENST00000256935.8	37	CCDS4371.1	.	.	.	.	.	.	.	.	.	.	G	23.8	4.458500	0.84317	.	.	ENSG00000134516	ENST00000256935;ENST00000520908;ENST00000540750	T;T;T	0.58940	0.3;0.3;0.3	5.84	5.84	0.93424	.	0.000000	0.85682	D	0.000000	D	0.82504	0.5051	M	0.91717	3.235	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.993;0.996	D	0.85470	0.1172	10	0.87932	D	0	.	20.1346	0.98019	0.0:0.0:1.0:0.0	.	566;1074	E7ERW7;Q92608	.;DOCK2_HUMAN	C	1074;566;135	ENSP00000256935:W1074C;ENSP00000429283:W566C;ENSP00000438827:W135C	ENSP00000256935:W1074C	W	+	3	0	DOCK2	169368318	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	9.869000	0.99810	2.765000	0.95021	0.655000	0.94253	TGG		0.498	DOCK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252828.2	NM_004946	
KCNMB1	3779	broad.mit.edu	37	5	169805927	169805927	+	Silent	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr5:169805927G>A	ENST00000274629.4	-	4	799	c.357C>T	c.(355-357)gaC>gaT	p.D119D	KCNIP1_ENST00000377360.4_Intron|KCNIP1_ENST00000518527.1_Intron	NM_004137.3	NP_004128.1	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated channel, subfamily M, beta member 1	119					blood coagulation (GO:0007596)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|response to calcium ion (GO:0051592)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	calcium-activated potassium channel activity (GO:0015269)|potassium channel regulator activity (GO:0015459)	p.D119D(1)		endometrium(1)|large_intestine(1)|lung(7)|ovary(2)	11	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)	Miconazole(DB01110)|Procaine(DB00721)	CCTTCTCCACGTCGGCCCGGG	0.572																																																1	Substitution - coding silent(1)	ovary(1)	5											78.0	78.0	78.0					5																	169805927		2203	4300	6503	169738505	SO:0001819	synonymous_variant	3779			AF035046	CCDS4373.1	5q34	2012-02-23			ENSG00000145936	ENSG00000145936		"""Potassium channels"""	6285	protein-coding gene	gene with protein product	"""BK channel beta subunit"""	603951				8799178, 9888999	Standard	NM_004137		Approved	hslo-beta	uc003maq.2	Q16558	OTTHUMG00000130439	ENST00000274629.4:c.357C>T	5.37:g.169805927G>A			169738505	O00707|O00708|P78475|Q53YR0|Q8TAX3|Q93005	Silent	SNP	ENST00000274629.4	37	CCDS4373.1																																																																																				0.572	KCNMB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252830.3		
CUL9	23113	broad.mit.edu	37	6	43154085	43154085	+	Missense_Mutation	SNP	G	G	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	C	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Sequenom;Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr6:43154085G>C	ENST00000252050.4	+	4	1227	c.1143G>C	c.(1141-1143)caG>caC	p.Q381H	CUL9_ENST00000372647.2_Missense_Mutation_p.Q381H|CUL9_ENST00000354495.3_Missense_Mutation_p.Q381H	NM_015089.2	NP_055904.1	Q8IWT3	CUL9_HUMAN	cullin 9	381					microtubule cytoskeleton organization (GO:0000226)|protein ubiquitination (GO:0016567)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)	cullin-RING ubiquitin ligase complex (GO:0031461)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|zinc ion binding (GO:0008270)	p.Q381H(1)		breast(3)|central_nervous_system(1)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|liver(1)|lung(30)|ovary(5)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(4)	92						ATGTGCAGCAGACACTCCAGC	0.582																																																1	Substitution - Missense(1)	ovary(1)	6											75.0	71.0	72.0					6																	43154085		2203	4300	6503	43262063	SO:0001583	missense	23113			AB014608	CCDS4890.1	6p21.1	2011-05-24			ENSG00000112659	ENSG00000112659			15982	protein-coding gene	gene with protein product	"""parkin-like cytoplasmic p53 binding protein"", ""p53-associated parkin-like cytoplasmic protein"""	607489				17332328, 10521492, 12526791	Standard	NM_015089		Approved	H7AP1, KIAA0708, PARC	uc003ouk.3	Q8IWT3	OTTHUMG00000014723	ENST00000252050.4:c.1143G>C	6.37:g.43154085G>C	ENSP00000252050:p.Gln381His		43262063	O75188|Q5TCY3|Q68CP2|Q68D92|Q8N3W9|Q9BU56	Missense_Mutation	SNP	ENST00000252050.4	37	CCDS4890.1	.	.	.	.	.	.	.	.	.	.	G	12.16	1.854754	0.32791	.	.	ENSG00000112659	ENST00000252050;ENST00000354495;ENST00000372647	T;T;T	0.73152	-0.71;-0.72;-0.61	5.5	3.67	0.42095	CPH domain (1);Translation protein SH3-like, subgroup (1);	0.557771	0.20291	N	0.095254	T	0.44746	0.1308	N	0.22421	0.69	0.27076	N	0.963204	B;B;P	0.37083	0.0;0.001;0.581	B;B;P	0.44359	0.001;0.003;0.447	T	0.39461	-0.9613	10	0.72032	D	0.01	-11.0765	7.9938	0.30256	0.1557:0.1334:0.7109:0.0	.	381;381;381	E9PEZ1;Q8IWT3;Q05C85	.;CUL9_HUMAN;.	H	381	ENSP00000252050:Q381H;ENSP00000346490:Q381H;ENSP00000361730:Q381H	ENSP00000252050:Q381H	Q	+	3	2	CUL9	43262063	0.811000	0.29063	0.957000	0.39632	0.569000	0.35902	0.968000	0.29357	0.648000	0.30732	0.467000	0.42956	CAG		0.582	CUL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040582.2	NM_015089	
VNN1	8876	broad.mit.edu	37	6	133004295	133004295	+	Missense_Mutation	SNP	C	C	G			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	G	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr6:133004295C>G	ENST00000367928.4	-	7	1539	c.1526G>C	c.(1525-1527)tGc>tCc	p.C509S		NM_004666.2	NP_004657.2	O95497	VNN1_HUMAN	vanin 1	509					acute inflammatory response (GO:0002526)|cellular component movement (GO:0006928)|chronic inflammatory response (GO:0002544)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|pantothenate metabolic process (GO:0015939)|positive regulation of T cell differentiation in thymus (GO:0033089)|response to oxidative stress (GO:0006979)|single organismal cell-cell adhesion (GO:0016337)	anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	GPI anchor binding (GO:0034235)|pantetheine hydrolase activity (GO:0017159)	p.C509S(1)		NS(2)|endometrium(3)|kidney(2)|large_intestine(8)|lung(10)|ovary(4)|prostate(1)|upper_aerodigestive_tract(1)	31	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.0027)|GBM - Glioblastoma multiforme(226;0.0189)		ACTTAATGAGCATACAATAGG	0.338																																																1	Substitution - Missense(1)	ovary(1)	6											113.0	106.0	109.0					6																	133004295		2203	4300	6503	133045988	SO:0001583	missense	8876			AJ132099	CCDS5159.1	6q23-q24	2013-02-13			ENSG00000112299	ENSG00000112299	3.5.1.92	"""Vanins"""	12705	protein-coding gene	gene with protein product		603570				9790769	Standard	NM_004666		Approved	Tiff66	uc003qdo.3	O95497	OTTHUMG00000015587	ENST00000367928.4:c.1526G>C	6.37:g.133004295C>G	ENSP00000356905:p.Cys509Ser		133045988	A8K310|Q4JFW6|Q4VAS7|Q4VAS8|Q4VAS9|Q9UF16|Q9UJF4	Missense_Mutation	SNP	ENST00000367928.4	37	CCDS5159.1	.	.	.	.	.	.	.	.	.	.	C	8.499	0.863894	0.17250	.	.	ENSG00000112299	ENST00000367928	D	0.87103	-2.21	5.86	-9.78	0.00496	.	1.934170	0.02002	N	0.046328	T	0.54581	0.1867	L	0.36672	1.1	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.54833	-0.8234	10	0.22706	T	0.39	-22.9361	2.5296	0.04700	0.3046:0.3823:0.1042:0.2089	.	509	O95497	VNN1_HUMAN	S	509	ENSP00000356905:C509S	ENSP00000356905:C509S	C	-	2	0	VNN1	133045988	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.179000	0.09768	-1.864000	0.01148	-0.247000	0.11927	TGC		0.338	VNN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042263.1		
RNF216	54476	broad.mit.edu	37	7	5662568	5662568	+	Missense_Mutation	SNP	C	C	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr7:5662568C>T	ENST00000425013.2	-	17	2748	c.2524G>A	c.(2524-2526)Gac>Aac	p.D842N	RNF216_ENST00000469375.1_5'UTR|RNF216_ENST00000389902.3_Missense_Mutation_p.D899N	NM_207111.3|NM_207116.2	NP_996994.1|NP_996999.1	Q9NWF9	RN216_HUMAN	ring finger protein 216	842	Pro-rich.				apoptotic process (GO:0006915)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|regulation of defense response to virus by host (GO:0050691)|regulation of interferon-beta production (GO:0032648)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)	p.D899N(1)	FBXL18/RNF216(2)	breast(3)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(11)|ovary(3)|prostate(1)|skin(1)|urinary_tract(4)	33		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		GGACCGAAGTCATAGTTGACC	0.632																																																1	Substitution - Missense(1)	ovary(1)	7											107.0	113.0	111.0					7																	5662568		2203	4300	6503	5629094	SO:0001583	missense	54476			AY062174	CCDS34594.1, CCDS34595.1	7p22.1	2014-02-12	2007-08-20		ENSG00000011275	ENSG00000011275		"""RING-type (C3HC4) zinc fingers"""	21698	protein-coding gene	gene with protein product		609948					Standard	NM_207111		Approved	TRIAD3, UBCE7IP1, ZIN	uc003sox.2	Q9NWF9	OTTHUMG00000155500	ENST00000425013.2:c.2524G>A	7.37:g.5662568C>T	ENSP00000404602:p.Asp842Asn		5629094	Q6Y691|Q75ML7|Q7Z2H7|Q7Z7C1|Q8NHW7|Q9NYT1	Missense_Mutation	SNP	ENST00000425013.2	37	CCDS34595.1	.	.	.	.	.	.	.	.	.	.	C	12.87	2.066450	0.36470	.	.	ENSG00000011275	ENST00000425013;ENST00000389902;ENST00000458425	T;T	0.44083	0.96;0.93	4.89	4.89	0.63831	.	0.485806	0.22969	N	0.053450	T	0.24624	0.0597	N	0.14661	0.345	0.37994	D	0.934012	B;B	0.10296	0.001;0.003	B;B	0.11329	0.004;0.006	T	0.14200	-1.0481	10	0.19590	T	0.45	-8.1628	10.6194	0.45470	0.0:0.9095:0.0:0.0905	.	842;899	Q9NWF9;Q9NWF9-1	RN216_HUMAN;.	N	842;899;654	ENSP00000404602:D842N;ENSP00000374552:D899N	ENSP00000374552:D899N	D	-	1	0	RNF216	5629094	0.980000	0.34600	0.980000	0.43619	0.967000	0.64934	3.011000	0.49567	2.411000	0.81874	0.561000	0.74099	GAC		0.632	RNF216-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000340374.1	NM_207111	
POLM	27434	broad.mit.edu	37	7	44119288	44119288	+	Missense_Mutation	SNP	C	C	T	rs372552883		TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr7:44119288C>T	ENST00000242248.5	-	4	625	c.524G>A	c.(523-525)cGc>cAc	p.R175H	POLM_ENST00000395831.3_Missense_Mutation_p.R175H|POLM_ENST00000335195.6_Missense_Mutation_p.R175H|POLM_ENST00000492971.1_5'Flank	NM_013284.2	NP_037416.1	Q9NP87	DPOLM_HUMAN	polymerase (DNA directed), mu	175					DNA recombination (GO:0006310)|DNA repair (GO:0006281)	nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)	p.R175H(1)		breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(2)|liver(1)|lung(6)|ovary(3)|skin(2)	22						GGTGAGGAGGCGGCCCTCACT	0.647								DNA polymerases (catalytic subunits)																																								1	Substitution - Missense(1)	ovary(1)	7						C	HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	49.0	53.0	51.0		524	3.9	0.7	7		51	0,8600		0,0,4300	no	missense	POLM	NM_013284.2	29	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	175/495	44119288	1,13005	2203	4300	6503	44085813	SO:0001583	missense	27434			AF176097	CCDS34625.1, CCDS64635.1, CCDS64636.1	7p13	2012-05-18			ENSG00000122678	ENSG00000122678		"""DNA polymerases"""	9185	protein-coding gene	gene with protein product	"""Pol iota"""	606344				10982892	Standard	XM_005249708		Approved	Tdt-N	uc003tjt.3	Q9NP87	OTTHUMG00000155353	ENST00000242248.5:c.524G>A	7.37:g.44119288C>T	ENSP00000242248:p.Arg175His		44085813	D3DVK4|Q6P5X8|Q86WQ9	Missense_Mutation	SNP	ENST00000242248.5	37	CCDS34625.1	.	.	.	.	.	.	.	.	.	.	C	12.63	1.995279	0.35226	2.27E-4	0.0	ENSG00000122678	ENST00000335195;ENST00000242248;ENST00000395831;ENST00000414235	T;T;T;T	0.50813	0.73;0.73;0.73;0.73	5.75	3.91	0.45181	DNA-directed DNA polymerase X (1);DNA-directed DNA polymerase, family X, beta-like, N-terminal (2);	0.051034	0.85682	N	0.000000	T	0.65312	0.2679	M	0.80183	2.485	0.51767	D	0.999936	D;D;D;P;D;D	0.89917	1.0;1.0;1.0;0.901;1.0;1.0	D;D;D;B;D;D	0.91635	0.999;0.997;0.999;0.232;0.999;0.999	T	0.63184	-0.6694	10	0.38643	T	0.18	-34.1918	7.9212	0.29848	0.0:0.7527:0.1611:0.0861	.	142;175;175;175;175;175	B4DG75;Q6PIY2;Q9H980;Q86WQ9;Q6P5X8;Q9NP87	.;.;.;.;.;DPOLM_HUMAN	H	175;175;175;142	ENSP00000335141:R175H;ENSP00000242248:R175H;ENSP00000379174:R175H;ENSP00000390899:R142H	ENSP00000242248:R175H	R	-	2	0	POLM	44085813	0.997000	0.39634	0.663000	0.29738	0.040000	0.13550	3.901000	0.56303	0.744000	0.32741	-0.140000	0.14226	CGC		0.647	POLM-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339594.1	NM_013284	
CACNA2D1	781	broad.mit.edu	37	7	81591785	81591785	+	Missense_Mutation	SNP	C	C	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr7:81591785C>A	ENST00000356253.5	-	35	3098	c.2843G>T	c.(2842-2844)aGt>aTt	p.S948I	CACNA2D1_ENST00000356860.3_Missense_Mutation_p.S936I|CACNA2D1_ENST00000535308.1_Missense_Mutation_p.S148I			P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha 2/delta subunit 1	948					calcium ion transport (GO:0006816)|regulation of calcium ion transport (GO:0051924)	extracellular vesicular exosome (GO:0070062)|sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)	p.S936I(1)		breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(15)|liver(1)|lung(42)|ovary(6)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	81					Amlodipine(DB00381)|Cyclandelate(DB04838)|Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)	AAAGGTCAAACTCAAGAGAAA	0.333																																																1	Substitution - Missense(1)	ovary(1)	7											44.0	45.0	45.0					7																	81591785		2203	4300	6503	81429721	SO:0001583	missense	781			M76559	CCDS5598.1	7q21-q22	2014-09-17			ENSG00000153956	ENSG00000153956		"""Calcium channel subunits"""	1399	protein-coding gene	gene with protein product		114204	"""long intergenic non-protein coding RNA 1112"""	CACNL2A, CACNA2, MHS3, LINC01112		8188232	Standard	XM_005250570		Approved	lncRNA-N3	uc003uhr.1	P54289	OTTHUMG00000023622	ENST00000356253.5:c.2843G>T	7.37:g.81591785C>A	ENSP00000348589:p.Ser948Ile		81429721	Q17R45|Q9UD80|Q9UD81|Q9UD82	Missense_Mutation	SNP	ENST00000356253.5	37		.	.	.	.	.	.	.	.	.	.	C	19.30	3.800309	0.70567	.	.	ENSG00000153956	ENST00000356860;ENST00000284088;ENST00000356253;ENST00000535308	T;T;T	0.70282	-0.47;-0.47;-0.47	5.42	5.42	0.78866	.	0.043225	0.85682	D	0.000000	D	0.84115	0.5401	M	0.73962	2.25	0.46478	D	0.999065	D;D	0.76494	0.999;0.991	D;D	0.68943	0.961;0.945	D	0.85580	0.1239	10	0.72032	D	0.01	-24.6262	19.2549	0.93943	0.0:1.0:0.0:0.0	.	148;936	B7Z658;P54289-2	.;.	I	936;955;948;148	ENSP00000349320:S936I;ENSP00000348589:S948I;ENSP00000443124:S148I	ENSP00000284088:S955I	S	-	2	0	CACNA2D1	81429721	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.249000	0.78278	2.556000	0.86216	0.585000	0.79938	AGT		0.333	CACNA2D1-201	KNOWN	basic	protein_coding	protein_coding			
PTPRZ1	5803	broad.mit.edu	37	7	121674386	121674386	+	Missense_Mutation	SNP	C	C	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr7:121674386C>A	ENST00000393386.2	+	17	5649	c.5238C>A	c.(5236-5238)aaC>aaA	p.N1746K	PTPRZ1_ENST00000449182.1_Missense_Mutation_p.N879K	NM_001206838.1|NM_002851.2	NP_001193767.1|NP_002842.2	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type, Z polypeptide 1	1746	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				axonogenesis (GO:0007409)|central nervous system development (GO:0007417)|hematopoietic progenitor cell differentiation (GO:0002244)|learning or memory (GO:0007611)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of oligodendrocyte progenitor proliferation (GO:0070445)	integral component of plasma membrane (GO:0005887)|perineuronal net (GO:0072534)|proteinaceous extracellular matrix (GO:0005578)	protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)	p.H1746Q(1)		NS(1)|breast(3)|central_nervous_system(4)|cervix(1)|endometrium(4)|kidney(12)|large_intestine(17)|liver(1)|lung(42)|ovary(4)|prostate(5)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	106						ACAGCTCCAACCACCCAGACA	0.363																																																1	Substitution - Missense(1)	ovary(1)	7											74.0	64.0	68.0					7																	121674386		2203	4300	6503	121461622	SO:0001583	missense	5803			M93426	CCDS34740.1, CCDS56505.1	7q31.3	2013-02-11			ENSG00000106278	ENSG00000106278		"""Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"", ""Fibronectin type III domain containing"""	9685	protein-coding gene	gene with protein product		176891		PTPZ, PTPRZ		7736789, 8387522	Standard	NM_001206838		Approved	PTP18, RPTPB, phosphacan	uc003vjy.3	P23471	OTTHUMG00000157057	ENST00000393386.2:c.5238C>A	7.37:g.121674386C>A	ENSP00000377047:p.Asn1746Lys		121461622	A4D0W5|C9JFM0|O76043|Q9UDR6	Missense_Mutation	SNP	ENST00000393386.2	37	CCDS34740.1	.	.	.	.	.	.	.	.	.	.	C	16.84	3.234105	0.58886	.	.	ENSG00000106278	ENST00000393386;ENST00000449182	T;T	0.13196	2.61;2.61	5.14	2.14	0.27477	Protein-tyrosine phosphatase, receptor/non-receptor type (2);	0.000000	0.64402	D	0.000001	T	0.22975	0.0555	L	0.37697	1.125	0.51767	D	0.999934	D;B;D	0.89917	1.0;0.159;1.0	D;B;D	0.85130	0.997;0.079;0.997	T	0.00664	-1.1620	10	0.66056	D	0.02	.	8.0143	0.30372	0.0:0.5033:0.0:0.4967	.	885;879;1746	P23471-2;C9JFM0;P23471	.;.;PTPRZ_HUMAN	K	1746;879	ENSP00000377047:N1746K;ENSP00000410000:N879K	ENSP00000377047:N1746K	N	+	3	2	PTPRZ1	121461622	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	1.035000	0.30216	0.174000	0.19809	-0.229000	0.12294	AAC		0.363	PTPRZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347288.1	NM_002851	
RAB11FIP1	80223	broad.mit.edu	37	8	37729629	37729629	+	Silent	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr8:37729629G>A	ENST00000330843.4	-	4	2703	c.2691C>T	c.(2689-2691)gtC>gtT	p.V897V	RAB11FIP1_ENST00000522727.1_Intron|RAB11FIP1_ENST00000523182.1_5'UTR|RAB11FIP1_ENST00000524118.1_Intron|RAB11FIP1_ENST00000287263.4_Intron	NM_001002814.2	NP_001002814.2	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 (class I)	897					protein transport (GO:0015031)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endosome (GO:0005768)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)		p.V897V(1)		NS(1)|breast(1)|central_nervous_system(4)|endometrium(3)|large_intestine(6)|lung(20)|ovary(3)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	49		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CACTCATGGGGACTTCGGAGA	0.597																																																1	Substitution - coding silent(1)	ovary(1)	8											58.0	57.0	57.0					8																	37729629		2203	4300	6503	37848787	SO:0001819	synonymous_variant	80223			AK092296	CCDS34881.1, CCDS34882.1	8p11.22	2005-10-04			ENSG00000156675	ENSG00000156675			30265	protein-coding gene	gene with protein product		608737				11786538, 11495908	Standard	NM_001002814		Approved	RCP, FLJ22622, FLJ22524, Rab11-FIP1	uc003xkm.2	Q6WKZ4	OTTHUMG00000164026	ENST00000330843.4:c.2691C>T	8.37:g.37729629G>A			37848787	J3KNP0|Q307T1|Q6AZK4|Q6WKZ2|Q6WKZ6|Q86YV4|Q8TDL1|Q9H642	Silent	SNP	ENST00000330843.4	37	CCDS34882.1																																																																																				0.597	RAB11FIP1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376816.1	NM_025151	
KLHL9	55958	broad.mit.edu	37	9	21333996	21333996	+	Nonsense_Mutation	SNP	G	G	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	C	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr9:21333996G>C	ENST00000359039.4	-	1	1383	c.863C>G	c.(862-864)tCa>tGa	p.S288*	KLHL9_ENST00000537938.1_Nonsense_Mutation_p.S220*			Q9P2J3	KLHL9_HUMAN	kelch-like family member 9	288					cytokinesis (GO:0000910)|mitotic nuclear division (GO:0007067)|protein ubiquitination (GO:0016567)	Cul3-RING ubiquitin ligase complex (GO:0031463)|midbody (GO:0030496)		p.S288*(1)		endometrium(9)|large_intestine(7)|lung(10)|ovary(4)|skin(2)	32				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		AGTTCTATCTGACTGCATCAC	0.423																																																1	Substitution - Nonsense(1)	ovary(1)	9											159.0	143.0	148.0					9																	21333996		2203	4300	6503	21323996	SO:0001587	stop_gained	55958			AB037775	CCDS6503.1	9p22	2013-01-30	2013-01-30		ENSG00000198642	ENSG00000198642		"""Kelch-like"", ""BTB/POZ domain containing"""	18732	protein-coding gene	gene with protein product		611201	"""kelch-like 9 (Drosophila)"""				Standard	NM_018847		Approved	KIAA1354, FLJ13568	uc003zoy.3	Q9P2J3	OTTHUMG00000019669	ENST00000359039.4:c.863C>G	9.37:g.21333996G>C	ENSP00000351933:p.Ser288*		21323996	Q8TCQ2	Nonsense_Mutation	SNP	ENST00000359039.4	37	CCDS6503.1	.	.	.	.	.	.	.	.	.	.	G	36	5.805918	0.96967	.	.	ENSG00000198642	ENST00000359039;ENST00000537938	.	.	.	5.37	5.37	0.77165	.	0.152839	0.45867	D	0.000327	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	16.9779	0.86319	0.0:0.0:1.0:0.0	.	.	.	.	X	288;220	.	ENSP00000351933:S288X	S	-	2	0	KLHL9	21323996	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.764000	0.98949	2.688000	0.91661	0.650000	0.86243	TCA		0.423	KLHL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051898.2	NM_018847	
GABBR2	9568	broad.mit.edu	37	9	101056091	101056091	+	Missense_Mutation	SNP	A	A	G			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	A	A	G	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr9:101056091A>G	ENST00000259455.2	-	18	3095	c.2636T>C	c.(2635-2637)aTa>aCa	p.I879T		NM_005458.7	NP_005449.5	O75899	GABR2_HUMAN	gamma-aminobutyric acid (GABA) B receptor, 2	879					G-protein coupled receptor signaling pathway (GO:0007186)|gamma-aminobutyric acid signaling pathway (GO:0007214)|negative regulation of adenylate cyclase activity (GO:0007194)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|G-protein coupled receptor heterodimeric complex (GO:0038039)|integral component of plasma membrane (GO:0005887)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	G-protein coupled GABA receptor activity (GO:0004965)	p.I879T(1)	NOTCH1_ENST00000277541/GABBR2(2)	breast(4)|endometrium(4)|large_intestine(12)|lung(21)|ovary(2)|skin(4)|stomach(1)|urinary_tract(1)	49		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	TATATCTTCTATAGGATCTTT	0.408																																																1	Substitution - Missense(1)	ovary(1)	9											225.0	219.0	221.0					9																	101056091		2203	4300	6503	100095912	SO:0001583	missense	9568			AF069755	CCDS6736.1	9q22.1-q22.3	2012-08-29	2006-02-16	2006-02-16	ENSG00000136928	ENSG00000136928		"""GABA receptors"", ""GPCR / Class C : GABA(B) receptors"""	4507	protein-coding gene	gene with protein product		607340	"""G protein-coupled receptor 51"""	GPR51		10087195	Standard	NM_005458		Approved	HG20, GABABR2, GPRC3B	uc004ays.3	O75899	OTTHUMG00000020345	ENST00000259455.2:c.2636T>C	9.37:g.101056091A>G	ENSP00000259455:p.Ile879Thr		100095912	O75974|O75975|Q5VXZ2|Q8WX04|Q9P1R2|Q9UNR1|Q9UNS9	Missense_Mutation	SNP	ENST00000259455.2	37	CCDS6736.1	.	.	.	.	.	.	.	.	.	.	A	12.13	1.845184	0.32606	.	.	ENSG00000136928	ENST00000259455	T	0.79454	-1.27	5.1	2.72	0.32119	.	0.154096	0.56097	D	0.000022	T	0.49966	0.1588	N	0.03608	-0.345	0.35174	D	0.771837	B	0.02656	0.0	B	0.01281	0.0	T	0.46898	-0.9158	10	0.22109	T	0.4	-15.2027	6.6231	0.22814	0.7456:0.1651:0.0893:0.0	.	879	O75899	GABR2_HUMAN	T	879	ENSP00000259455:I879T	ENSP00000259455:I879T	I	-	2	0	GABBR2	100095912	1.000000	0.71417	0.970000	0.41538	0.748000	0.42578	5.499000	0.66937	0.953000	0.37825	-0.280000	0.10049	ATA		0.408	GABBR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053373.1		
TLR4	7099	broad.mit.edu	37	9	120476895	120476895	+	Missense_Mutation	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr9:120476895G>A	ENST00000355622.6	+	3	2590	c.2489G>A	c.(2488-2490)gGa>gAa	p.G830E	TLR4_ENST00000472304.1_3'UTR|TLR4_ENST00000394487.4_Missense_Mutation_p.G790E	NM_138554.4|NM_138557.2	NP_612564.1|NP_612567.1	O00206	TLR4_HUMAN	toll-like receptor 4	830					activation of MAPK activity (GO:0000187)|B cell proliferation involved in immune response (GO:0002322)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to lipoteichoic acid (GO:0071223)|cellular response to mechanical stimulus (GO:0071260)|defense response to bacterium (GO:0042742)|defense response to Gram-negative bacterium (GO:0050829)|detection of fungus (GO:0016046)|detection of lipopolysaccharide (GO:0032497)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|immune response (GO:0006955)|innate immune response (GO:0045087)|interferon-gamma production (GO:0032609)|intestinal epithelial structure maintenance (GO:0060729)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|macrophage activation (GO:0042116)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of interleukin-17 production (GO:0032700)|negative regulation of interleukin-23 production (GO:0032707)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of osteoclast differentiation (GO:0045671)|negative regulation of tumor necrosis factor production (GO:0032720)|nitric oxide production involved in inflammatory response (GO:0002537)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of chemokine production (GO:0032722)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta biosynthetic process (GO:0045359)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-1 production (GO:0032732)|positive regulation of interleukin-10 production (GO:0032733)|positive regulation of interleukin-12 biosynthetic process (GO:0045084)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of interleukin-8 biosynthetic process (GO:0045416)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of JNK cascade (GO:0046330)|positive regulation of macrophage cytokine production (GO:0060907)|positive regulation of MHC class II biosynthetic process (GO:0045348)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)|positive regulation of nucleotide-binding oligomerization domain containing 1 signaling pathway (GO:0070430)|positive regulation of nucleotide-binding oligomerization domain containing 2 signaling pathway (GO:0070434)|positive regulation of platelet activation (GO:0010572)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|positive regulation of tumor necrosis factor production (GO:0032760)|regulation of cytokine secretion (GO:0050707)|response to lipopolysaccharide (GO:0032496)|T-helper 1 type immune response (GO:0042088)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|endosome membrane (GO:0010008)|external side of plasma membrane (GO:0009897)|integral component of plasma membrane (GO:0005887)|lipopolysaccharide receptor complex (GO:0046696)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	lipopolysaccharide binding (GO:0001530)|lipopolysaccharide receptor activity (GO:0001875)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)	p.G830E(1)		breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(12)|lung(66)|ovary(4)|pancreas(1)|skin(6)|upper_aerodigestive_tract(5)|urinary_tract(1)	103					Naloxone(DB01183)	GTGGGTACAGGATGCAATTGG	0.483																																																1	Substitution - Missense(1)	ovary(1)	9											80.0	83.0	82.0					9																	120476895		2203	4300	6503	119516716	SO:0001583	missense	7099			U88880	CCDS6818.1	9q33.1	2013-01-23			ENSG00000136869	ENSG00000136869		"""CD molecules"""	11850	protein-coding gene	gene with protein product		603030				9435236, 9237759	Standard	NM_138554		Approved	hToll, CD284, TLR-4, ARMD10	uc004bjz.4	O00206	OTTHUMG00000021046	ENST00000355622.6:c.2489G>A	9.37:g.120476895G>A	ENSP00000363089:p.Gly830Glu		119516716	A8K1Y8|A9XLP9|A9XLQ0|A9XLQ1|B4E194|D1CS52|D1CS53|Q5VZI8|Q5VZI9|Q9UK78|Q9UM57	Missense_Mutation	SNP	ENST00000355622.6	37	CCDS6818.1	.	.	.	.	.	.	.	.	.	.	G	0.181	-1.062020	0.01950	.	.	ENSG00000136869	ENST00000394487;ENST00000355622	T;T	0.37235	1.51;1.21	5.79	2.12	0.27331	.	0.533640	0.18571	N	0.137327	T	0.07999	0.0200	N	0.00707	-1.245	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.36986	-0.9725	10	0.02654	T	1	.	4.8098	0.13339	0.667:0.1589:0.1741:0.0	.	830	O00206	TLR4_HUMAN	E	790;830	ENSP00000377997:G790E;ENSP00000363089:G830E	ENSP00000363089:G830E	G	+	2	0	TLR4	119516716	0.031000	0.19500	0.063000	0.19743	0.002000	0.02628	0.536000	0.23129	0.463000	0.27118	-0.302000	0.09304	GGA		0.483	TLR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055549.3	NM_138554	
HSPA5	3309	broad.mit.edu	37	9	128000546	128000546	+	Missense_Mutation	SNP	T	T	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	T	T	A	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr9:128000546T>A	ENST00000324460.6	-	7	1479	c.1276A>T	c.(1276-1278)Att>Ttt	p.I426F		NM_005347.4	NP_005338.1	P11021	GRP78_HUMAN	heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa)	426					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|cellular response to antibiotic (GO:0071236)|cellular response to glucose starvation (GO:0042149)|cellular response to interleukin-4 (GO:0071353)|cerebellar Purkinje cell layer development (GO:0021680)|cerebellum structural organization (GO:0021589)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER overload response (GO:0006983)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|maintenance of protein localization in endoplasmic reticulum (GO:0035437)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of cell migration (GO:0030335)|positive regulation of protein ubiquitination (GO:0031398)|regulation of protein folding in endoplasmic reticulum (GO:0060904)|substantia nigra development (GO:0021762)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum chaperone complex (GO:0034663)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of endoplasmic reticulum membrane (GO:0030176)|membrane (GO:0016020)|midbody (GO:0030496)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|calcium ion binding (GO:0005509)|chaperone binding (GO:0051087)|enzyme binding (GO:0019899)|glycoprotein binding (GO:0001948)|misfolded protein binding (GO:0051787)|protein domain specific binding (GO:0019904)|ribosome binding (GO:0043022)|ubiquitin protein ligase binding (GO:0031625)|unfolded protein binding (GO:0051082)	p.I426F(1)		breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|ovary(4)|prostate(2)|skin(1)	23					Acetylsalicylic acid(DB00945)|Antihemophilic Factor(DB00025)	ACAGTTTCAATACCAAGTGTA	0.403										Prostate(1;0.17)																																						1	Substitution - Missense(1)	ovary(1)	9											126.0	111.0	116.0					9																	128000546		2203	4300	6503	127040367	SO:0001583	missense	3309				CCDS6863.1	9q33.3	2011-09-02	2002-08-29		ENSG00000044574	ENSG00000044574		"""Heat shock proteins / HSP70"""	5238	protein-coding gene	gene with protein product		138120	"""heat shock 70kD protein 5 (glucose-regulated protein, 78kD)"""	GRP78			Standard	NM_005347		Approved	BiP	uc004bpn.3	P11021	OTTHUMG00000020672	ENST00000324460.6:c.1276A>T	9.37:g.128000546T>A	ENSP00000324173:p.Ile426Phe		127040367	B0QZ61|Q2EF78|Q9NPF1|Q9UK02	Missense_Mutation	SNP	ENST00000324460.6	37	CCDS6863.1	.	.	.	.	.	.	.	.	.	.	T	28.2	4.899104	0.91962	.	.	ENSG00000044574	ENST00000324460	T	0.01422	4.91	4.61	4.61	0.57282	.	0.000000	0.85682	D	0.000000	T	0.18087	0.0434	H	0.99425	4.56	0.80722	D	1	D	0.76494	0.999	D	0.72982	0.979	T	0.38950	-0.9637	10	0.87932	D	0	-16.7653	13.1949	0.59732	0.0:0.0:0.0:1.0	.	426	P11021	GRP78_HUMAN	F	426	ENSP00000324173:I426F	ENSP00000324173:I426F	I	-	1	0	HSPA5	127040367	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.040000	0.89188	1.701000	0.51217	0.455000	0.32223	ATT		0.403	HSPA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054062.1		
WWC3	55841	broad.mit.edu	37	X	10084547	10084547	+	Splice_Site	SNP	G	G	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	T	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chrX:10084547G>T	ENST00000380861.4	+	10	1455	c.1064G>T	c.(1063-1065)aGc>aTc	p.S355I	WWC3_ENST00000454666.1_Splice_Site_p.S355I	NM_015691.3	NP_056506.2	Q9ULE0	WWC3_HUMAN	WWC family member 3	355	Ser-rich.				negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)	p.S355I(1)		NS(1)|breast(3)|endometrium(10)|kidney(1)|large_intestine(11)|lung(17)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	52						CAGTTAAAAAGGTAGGTTACT	0.408																																																1	Substitution - Missense(1)	ovary(1)	X											113.0	108.0	110.0					X																	10084547		2203	4300	6503	10044547	SO:0001630	splice_region_variant	55841			AK091936	CCDS14136.1	Xp22.32	2008-02-05			ENSG00000047644	ENSG00000047644		"""WW, C2 and coiled-coil domain containing"""	29237	protein-coding gene	gene with protein product						10574462	Standard	NM_015691		Approved	KIAA1280, BM042	uc004csx.4	Q9ULE0	OTTHUMG00000021123	ENST00000380861.4:c.1064+1G>T	X.37:g.10084547G>T			10044547	A8KA96|Q659C1|Q9BTQ1	Missense_Mutation	SNP	ENST00000380861.4	37	CCDS14136.1	.	.	.	.	.	.	.	.	.	.	G	14.57	2.573748	0.45902	.	.	ENSG00000047644	ENST00000380861;ENST00000454666;ENST00000543293;ENST00000398613	T;T	0.45668	0.89;0.89	4.95	4.09	0.47781	.	0.230668	0.53938	D	0.000041	T	0.64204	0.2577	M	0.85859	2.78	0.80722	D	1	D	0.63046	0.992	P	0.62014	0.897	T	0.69917	-0.5015	10	0.87932	D	0	-24.883	12.6751	0.56889	0.0824:0.0:0.9176:0.0	.	355	Q9ULE0	WWC3_HUMAN	I	355;355;19;355	ENSP00000370242:S355I;ENSP00000399584:S355I	ENSP00000370242:S355I	S	+	2	0	WWC3	10044547	1.000000	0.71417	0.166000	0.22797	0.124000	0.20399	8.976000	0.93442	0.898000	0.36418	0.585000	0.79938	AGC		0.408	WWC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055725.1	NM_015691	Missense_Mutation
RS1	6247	broad.mit.edu	37	X	18662574	18662574	+	Nonsense_Mutation	SNP	G	G	C			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	C	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chrX:18662574G>C	ENST00000379984.3	-	5	538	c.498C>G	c.(496-498)taC>taG	p.Y166*	CDKL5_ENST00000379989.3_Intron|CDKL5_ENST00000379996.3_Intron|RS1_ENST00000476595.1_5'UTR	NM_000330.3	NP_000321.1	O15537	XLRS1_HUMAN	retinoschisin 1	166	F5/8 type C. {ECO:0000255|PROSITE- ProRule:PRU00081}.				adaptation of rhodopsin mediated signaling (GO:0016062)|cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|retina layer formation (GO:0010842)|visual perception (GO:0007601)	extracellular space (GO:0005615)|extrinsic component of plasma membrane (GO:0019897)	phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-3-phosphate binding (GO:0032266)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|phosphatidylinositol-4-phosphate binding (GO:0070273)|phosphatidylinositol-5-phosphate binding (GO:0010314)|phosphatidylserine binding (GO:0001786)	p.Y166*(1)		cervix(1)|endometrium(4)|large_intestine(5)|lung(2)|ovary(2)|skin(1)	15	Hepatocellular(33;0.183)					TCTGGTCCTTGTAGTAAATCC	0.557																																																1	Substitution - Nonsense(1)	ovary(1)	X											149.0	118.0	129.0					X																	18662574		2203	4300	6503	18572495	SO:0001587	stop_gained	6247			AF014459	CCDS14187.1	Xp22.2-p22.1	2014-09-17	2008-07-29		ENSG00000102104	ENSG00000102104			10457	protein-coding gene	gene with protein product		300839	"""retinoschisis (X-linked, juvenile) 1"""	RS		9326935, 17804407	Standard	NM_000330		Approved	XLRS1	uc004cyo.3	O15537	OTTHUMG00000021216	ENST00000379984.3:c.498C>G	X.37:g.18662574G>C	ENSP00000369320:p.Tyr166*		18572495	Q0QD39	Nonsense_Mutation	SNP	ENST00000379984.3	37	CCDS14187.1	.	.	.	.	.	.	.	.	.	.	g	24.3	4.515322	0.85389	.	.	ENSG00000102104	ENST00000379984	.	.	.	4.91	-1.72	0.08107	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	16.2638	0.82563	0.1834:0.0:0.8166:0.0	.	.	.	.	X	166	.	ENSP00000369320:Y166X	Y	-	3	2	RS1	18572495	1.000000	0.71417	0.984000	0.44739	0.993000	0.82548	2.440000	0.44855	-0.659000	0.05359	-0.356000	0.07607	TAC		0.557	RS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055949.1		
PDHA1	5160	broad.mit.edu	37	X	19367444	19367444	+	Silent	SNP	G	G	A			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chrX:19367444G>A	ENST00000422285.2	+	2	177	c.72G>A	c.(70-72)ctG>ctA	p.L24L	PDHA1_ENST00000379805.3_Silent_p.L24L|PDHA1_ENST00000545074.1_Silent_p.L24L|PDHA1_ENST00000540249.1_Silent_p.L24L|PDHA1_ENST00000379806.5_Silent_p.L62L			P08559	ODPA_HUMAN	pyruvate dehydrogenase (lipoamide) alpha 1	24					acetyl-CoA biosynthetic process from pyruvate (GO:0006086)|cellular metabolic process (GO:0044237)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|pyruvate dehydrogenase complex (GO:0045254)	pyruvate dehydrogenase (acetyl-transferring) activity (GO:0004739)|pyruvate dehydrogenase activity (GO:0004738)	p.L24L(1)		endometrium(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|prostate(1)	18	Hepatocellular(33;0.183)					GCAGAGTGCTGGTAGCATCCC	0.299																																																1	Substitution - coding silent(1)	ovary(1)	X											81.0	73.0	76.0					X																	19367444		2203	4300	6503	19277365	SO:0001819	synonymous_variant	5160				CCDS14192.1, CCDS55380.1, CCDS55381.1, CCDS55382.1	Xp22.1	2008-02-05			ENSG00000131828	ENSG00000131828	1.2.4.1		8806	protein-coding gene	gene with protein product		300502		PDHA			Standard	NM_001173454		Approved		uc004czh.4	P08559	OTTHUMG00000021224	ENST00000422285.2:c.72G>A	X.37:g.19367444G>A			19277365	A5YVE9|B2R5P7|B7Z3T7|B7Z3X5|Q53H41|Q5JPT8|Q9NP12|Q9UBJ8|Q9UBU0|Q9UNG4|Q9UNG5	Silent	SNP	ENST00000422285.2	37	CCDS14192.1																																																																																				0.299	PDHA1-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055977.1		
EFHC2	80258	broad.mit.edu	37	X	44037780	44037780	+	Missense_Mutation	SNP	G	G	T	rs369113642		TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	G	G	T	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chrX:44037780G>T	ENST00000420999.1	-	12	1865	c.1782C>A	c.(1780-1782)aaC>aaA	p.N594K	EFHC2_ENST00000343571.3_5'UTR	NM_025184.3	NP_079460.2	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	594							calcium ion binding (GO:0005509)	p.N594K(1)		NS(1)|breast(7)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(6)|ovary(2)|skin(1)|urinary_tract(1)	29						GCTCTGCAAGGTTTCCAACAG	0.368																																																1	Substitution - Missense(1)	ovary(1)	X						G	LYS/ASN	0,3130		0,0,0,1280,570	48.0	40.0	43.0		1782	-11.0	0.0	X		43	1,6391		0,0,1,2309,1773	no	missense	EFHC2	NM_025184.3	94	0,0,1,3589,2343	TT,TG,T,GG,G		0.0156,0.0,0.0105	benign	594/750	44037780	1,9521	1850	4083	5933	43922724	SO:0001583	missense	80258			AK026254	CCDS55405.1	Xp11	2014-01-31			ENSG00000183690	ENSG00000183690		"""EF-hand domain containing"""	26233	protein-coding gene	gene with protein product		300817	"""mental retardation, X-linked 74"""	MRX74		17221867	Standard	NM_025184		Approved	FLJ22843	uc004dgb.4	Q5JST6	OTTHUMG00000021393	ENST00000420999.1:c.1782C>A	X.37:g.44037780G>T	ENSP00000404232:p.Asn594Lys		43922724	Q5JST8|Q68DK4|Q8NEI0|Q9H653	Missense_Mutation	SNP	ENST00000420999.1	37	CCDS55405.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	0.572|0.572	-0.840758|-0.840758	0.02692|0.02692	0.0|0.0	1.56E-4|1.56E-4	ENSG00000183690|ENSG00000183690	ENST00000343571;ENST00000333807;ENST00000420999|ENST00000441230	T;T|.	0.65364|.	-0.14;-0.15|.	5.53|5.53	-11.0|-11.0	0.00169|0.00169	EF-hand-like domain (1);|.	1.359230|.	0.04323|.	N|.	0.351068|.	T|T	0.07279|0.07279	0.0184|0.0184	N|N	0.02960|0.02960	-0.455|-0.455	0.09310|0.09310	N|N	1|1	B|.	0.06786|.	0.001|.	B|.	0.04013|.	0.001|.	T|T	0.15037|0.15037	-1.0451|-1.0451	10|5	0.02654|.	T|.	1|.	-0.0624|-0.0624	1.0658|1.0658	0.01611|0.01611	0.2933:0.2979:0.25:0.1588|0.2933:0.2979:0.25:0.1588	.|.	594|.	Q5JST6|.	EFHC2_HUMAN|.	K|T	7;594;622|575	ENSP00000333823:N594K;ENSP00000404232:N622K|.	ENSP00000333823:N594K|.	N|P	-|-	3|1	2|0	EFHC2|EFHC2	43922724|43922724	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.005000|0.005000	0.04900|0.04900	-1.053000|-1.053000	0.03500|0.03500	-2.125000|-2.125000	0.00821|0.00821	-0.325000|-0.325000	0.08501|0.08501	AAC|CCT		0.368	EFHC2-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056312.2	NM_025184	
MTM1	4534	broad.mit.edu	37	X	149809889	149809889	+	Missense_Mutation	SNP	C	C	T			TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chrX:149809889C>T	ENST00000370396.2	+	8	730	c.676C>T	c.(676-678)Cca>Tca	p.P226S	MTM1_ENST00000542741.1_Missense_Mutation_p.P131S|MTM1_ENST00000306167.7_3'UTR|MTM1_ENST00000543350.1_Missense_Mutation_p.P111S|MTM1_ENST00000413012.2_Missense_Mutation_p.P189S	NM_000252.2	NP_000243.1	Q13496	MTM1_HUMAN	myotubularin 1	226	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.		P -> T (in CNMX). {ECO:0000269|PubMed:12522554}.		endosome to lysosome transport (GO:0008333)|intermediate filament organization (GO:0045109)|mitochondrion distribution (GO:0048311)|mitochondrion morphogenesis (GO:0070584)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|protein transport (GO:0015031)|regulation of vacuole organization (GO:0044088)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|late endosome (GO:0005770)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	intermediate filament binding (GO:0019215)|phosphatidylinositol binding (GO:0035091)|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein tyrosine phosphatase activity (GO:0004725)	p.P226S(1)		breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|liver(1)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26	Acute lymphoblastic leukemia(192;6.56e-05)					AAATCGAATTCCAGTGAGTAC	0.433																																																1	Substitution - Missense(1)	ovary(1)	X	GRCh37	CM030247	MTM1	M							120.0	106.0	111.0					X																	149809889		2203	4300	6503	149560547	SO:0001583	missense	4534			U46024	CCDS14694.1	Xq27.3-q28	2014-09-17			ENSG00000171100	ENSG00000171100		"""Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"""	7448	protein-coding gene	gene with protein product		300415	"""myotubular myopathy 1"""				Standard	NM_000252		Approved		uc004fef.4	Q13496	OTTHUMG00000024158	ENST00000370396.2:c.676C>T	X.37:g.149809889C>T	ENSP00000359423:p.Pro226Ser		149560547	A6NDB1|B7Z491|F2Z330|Q8NEL1	Missense_Mutation	SNP	ENST00000370396.2	37	CCDS14694.1	.	.	.	.	.	.	.	.	.	.	C	25.5	4.647966	0.87958	.	.	ENSG00000171100	ENST00000370396;ENST00000542741;ENST00000543350;ENST00000413012	D;D;D;D	0.99060	-5.38;-5.38;-5.38;-5.38	5.43	5.43	0.79202	Myotubularin phosphatase domain (1);Myotubularin-related (1);	0.048988	0.85682	D	0.000000	D	0.99677	0.9879	H	0.99600	4.65	0.80722	D	1	D;D	0.67145	0.996;0.996	D;D	0.74023	0.982;0.944	D	0.97133	0.9819	10	0.87932	D	0	.	18.6083	0.91275	0.0:1.0:0.0:0.0	.	189;226	B7Z491;Q13496	.;MTM1_HUMAN	S	226;131;111;189	ENSP00000359423:P226S;ENSP00000444015:P131S;ENSP00000439784:P111S;ENSP00000389157:P189S	ENSP00000359423:P226S	P	+	1	0	MTM1	149560547	1.000000	0.71417	0.999000	0.59377	0.981000	0.71138	7.409000	0.80053	2.425000	0.82216	0.523000	0.50628	CCA		0.433	MTM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060847.3	NM_000252	
TP53	7157	broad.mit.edu	37	17	7577514	7577516	+	In_Frame_Del	DEL	GTG	GTG	-	rs587781433		TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	GTG	GTG	-	-	GTG	GTG	Unknown	Valid	Somatic	Phase_I	Capture	Illumina_Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr17:7577514_7577516delGTG	ENST00000269305.4	-	7	954_956	c.765_767delCAC	c.(763-768)atcaca>ata	p.T256del	TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_In_Frame_Del_p.T256del|TP53_ENST00000413465.2_In_Frame_Del_p.T256del|TP53_ENST00000420246.2_In_Frame_Del_p.T256del|TP53_ENST00000359597.4_In_Frame_Del_p.T256del|TP53_ENST00000445888.2_In_Frame_Del_p.T256del	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	256	Interaction with AXIN1. {ECO:0000250}.|Interaction with E4F1.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		T -> I (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).|T -> P (in sporadic cancers; somatic mutation).|T -> S (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.0?(8)|p.I255del(7)|p.T256fs*89(4)|p.T256A(3)|p.T256fs*8(2)|p.T256I(2)|p.T256K(2)|p.T256S(2)|p.I255I(2)|p.?(1)|p.T256P(1)|p.I254fs*7(1)|p.I255M(1)|p.T256fs*90(1)|p.T256del(1)|p.R249_T256delRPILTIIT(1)|p.T256fs*87(1)|p.T256fs*17(1)|p.I254_T256del(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)	Acetylsalicylic acid(DB00945)	GTCTTCCAGTGTGATGATGGTGA	0.591		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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"""L, E, M, O"""	42	Substitution - Missense(11)|Deletion - In frame(10)|Whole gene deletion(8)|Deletion - Frameshift(6)|Insertion - Frameshift(4)|Substitution - coding silent(2)|Unknown(1)	breast(8)|central_nervous_system(6)|ovary(6)|bone(5)|large_intestine(4)|oesophagus(3)|haematopoietic_and_lymphoid_tissue(2)|urinary_tract(2)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)|skin(1)|lung(1)|pancreas(1)	17	GRCh37	CM951232	TP53	M																																				7518241	SO:0001651	inframe_deletion	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"""Li-Fraumeni syndrome"""	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.765_767delCAC	17.37:g.7577514_7577516delGTG	ENSP00000269305:p.Thr256del		7518239	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	In_Frame_Del	DEL	ENST00000269305.4	37	CCDS11118.1																																																																																				0.591	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	
CNTNAP1	8506	broad.mit.edu	37	17	40842822	40842852	+	Frame_Shift_Del	DEL	ATGGAGCGGCCATTCCTGGGGGCTATCCAGT	ATGGAGCGGCCATTCCTGGGGGCTATCCAGT	-	rs142269872|rs202120747|rs200460212|rs368809538	byFrequency	TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	ATGGAGCGGCCATTCCTGGGGGCTATCCAGT	ATGGAGCGGCCATTCCTGGGGGCTATCCAGT	-	-	ATGGAGCGGCCATTCCTGGGGGCTATCCAGT	ATGGAGCGGCCATTCCTGGGGGCTATCCAGT	Unknown	Valid	Somatic	Phase_I	Capture	Illumina_Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr17:40842822_40842852delATGGAGCGGCCATTCCTGGGGGCTATCCAGT	ENST00000264638.4	+	13	2138_2168	c.1921_1951delATGGAGCGGCCATTCCTGGGGGCTATCCAGT	c.(1921-1953)atggagcggccattcctgggggctatccagtacfs	p.MERPFLGAIQY641fs	CTD-3193K9.3_ENST00000592440.1_RNA	NM_003632.2	NP_003623.1	P78357	CNTP1_HUMAN	contactin associated protein 1	641	Fibrinogen C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00739}.				axon cargo transport (GO:0008088)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|cytoskeleton organization (GO:0007010)|neuromuscular process controlling balance (GO:0050885)|neuromuscular process controlling posture (GO:0050884)|neuron projection morphogenesis (GO:0048812)|neuronal action potential propagation (GO:0019227)|paranodal junction assembly (GO:0030913)|positive regulation of signal transduction (GO:0009967)|protein localization to paranode region of axon (GO:0002175)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|paranode region of axon (GO:0033270)|voltage-gated potassium channel complex (GO:0008076)	receptor activity (GO:0004872)|SH3 domain binding (GO:0017124)|SH3/SH2 adaptor activity (GO:0005070)	p.M641fs*96(1)|p.M641I(1)		NS(1)|breast(4)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(11)|lung(15)|ovary(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	49		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		AGGTTCCAGCATGGAGCGGCCATTCCTGGGGGCTATCCAGTACTGGAATGC	0.567																																																2	Substitution - Missense(1)|Deletion - Frameshift(1)	upper_aerodigestive_tract(1)|ovary(1)	17																																								38096378	SO:0001589	frameshift_variant	8506			U87223	CCDS11436.1	17q21	2008-07-18				ENSG00000108797			8011	protein-coding gene	gene with protein product	"""neurexin 4"""	602346		NRXN4		9118959	Standard	NM_003632		Approved	p190, Caspr, CNTNAP	uc002iay.3	P78357		ENST00000264638.4:c.1921_1951delATGGAGCGGCCATTCCTGGGGGCTATCCAGT	17.37:g.40842822_40842852delATGGAGCGGCCATTCCTGGGGGCTATCCAGT	ENSP00000264638:p.Met641fs		38096348		Frame_Shift_Del	DEL	ENST00000264638.4	37	CCDS11436.1																																																																																				0.567	CNTNAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452342.1	NM_003632	
TBP	6908	broad.mit.edu	37	6	170871038	170871040	+	In_Frame_Del	DEL	CAA	CAA	-	rs71815788|rs55736770	byFrequency	TCGA-23-2078-01A-01W-0722-08	TCGA-23-2078-10A-01W-0722-08	CAA	CAA	-	-	CAA	CAA	Unknown	Valid	Somatic	Phase_I	Capture	Illumina_Capture			Illumina GAIIx	50216c60-ef83-4d4c-adcc-b453d763e881	15604574-abd7-43a2-af20-30c73cb7d502	g.chr6:170871038_170871040delCAA	ENST00000392092.2	+	3	493_495	c.214_216delCAA	c.(214-216)caadel	p.Q95del	TBP_ENST00000230354.6_In_Frame_Del_p.Q95del|TBP_ENST00000540980.1_In_Frame_Del_p.Q75del	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	95	Poly-Gln.		Missing. {ECO:0000269|PubMed:2374612}.	Missing (in Ref. 4; BAG65425). {ECO:0000305}.	cell death (GO:0008219)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|transcription factor TFIIA complex (GO:0005672)|transcription factor TFIID complex (GO:0005669)	repressing transcription factor binding (GO:0070491)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)	p.Q72del(3)		breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		gcagcagcagcaacagcaacagc	0.567																																																3	Deletion - In frame(3)	ovary(1)|prostate(1)|breast(1)	6																																								170712965	SO:0001651	inframe_deletion	6908			M55654	CCDS5315.1, CCDS55077.1	6q27	2014-04-02			ENSG00000112592	ENSG00000112592		"""General transcription factors"""	11588	protein-coding gene	gene with protein product		600075		GTF2D1, SCA17		2194289, 11448935	Standard	NM_003194		Approved	TFIID	uc003qxu.3	P20226	OTTHUMG00000016084	ENST00000392092.2:c.214_216delCAA	6.37:g.170871038_170871040delCAA	ENSP00000375942:p.Gln95del		170712963	B4E3B3|F5H869|Q16845|Q6IBM6|Q9UC02	In_Frame_Del	DEL	ENST00000392092.2	37	CCDS5315.1																																																																																				0.567	TBP-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043271.2	NM_003194	
