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| TissGeneSummary for SVOP |
 Gene summary |
| Basic gene information | Gene symbol | SVOP |
| Gene name | SV2 related protein homolog (rat) | |
| Synonyms | - | |
| Cytomap | UCSC genome browser: 12q24.11 | |
| Type of gene | protein-coding | |
| RefGenes | NM_018711.4, | |
| Description | SV2-related proteinsynaptic vesicle 2-related protein | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 611699 | |
| HGNC : HGNC | ||
| HPRD : 13224 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_SVOP | |
| BioGPS: 55530 | ||
| Pathway | NCI Pathway Interaction Database: SVOP | |
| KEGG: SVOP | ||
| REACTOME: SVOP | ||
| Pathway Commons: SVOP | ||
| Context | iHOP: SVOP | |
| ligand binding site mutation search in PubMed: SVOP | ||
| UCL Cancer Institute: SVOP | ||
| Assigned class in TissGDB* | C | |
| Included tissue-specific gene expression resources | HPA,TiGER | |
| Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Brain | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGG | |
| Reference showing the relevant tissue of SVOP | ||
| Description by TissGene annotations | ||
| * Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO term | PubMed ID |
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| TissGeneExp for SVOP |
| Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
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| Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
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| Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
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| Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
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| - Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
| Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
| COAD | -2.00594259 | 0.76128818 | -2.767230769 | 3.60E-17 | 4.38E-15 |
| STAD | -1.454288503 | 0.066323997 | -1.5206125 | 0.000512 | 0.003087099 |
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| TissGene-miRNA for SVOP |
| Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
| Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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| TissGeneMut for SVOP |
| TissGeneSNV for SVOP |
| nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
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| Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.P455T | LUAD | 1 |
| p.R469T | BLCA | 1 |
| p.S408L | SKCM | 1 |
| p.G216E | SKCM | 1 |
| p.E468K | LUAD | 1 |
| p.A223T | PAAD | 1 |
| p.R343C | KIRC | 1 |
| p.G458R | LUAD | 1 |
| p.K448N | HNSC | 1 |
| p.A433D | LUAD | 1 |
| p.S292L | UCEC | 1 |
| p.G333C | LUAD | 1 |
| p.S412R | COAD | 1 |
| p.C443Y | BLCA | 1 |
| p.V375I | BRCA | 1 |
| p.V118M | UCEC | 1 |
| p.G483D | SKCM | 1 |
| p.R346H | COAD | 1 |
| p.R300W | KICH | 1 |
| p.T95I | UCEC | 1 |
| p.G398V | LUAD | 1 |
| p.G483S | SKCM | 1 |
| p.R515* | LUAD | 1 |
| p.L269I | UCEC | 1 |
| p.V471M | SKCM | 1 |
| p.G204R | SKCM | 1 |
| p.R305T | LUAD | 1 |
| p.E404Q | BLCA | 1 |
| p.P335L | UCEC | 1 |
| p.W338* | SARC | 1 |
| p.R299W | KICH | 1 |
| p.Q271K | LUAD | 1 |
| p.S408* | LUAD | 1 |
| p.P61A | MESO | 1 |
| p.G327E | SKCM | 1 |
| p.F329L | HNSC | 1 |
| p.E370D | LUAD | 1 |
| p.R225C | SKCM | 1 |
| p.R370G | LUAD | 1 |
| p.G514C | HNSC | 1 |
| p.484_484insN | SKCM | 1 |
| p.E287K | SKCM | 1 |
| p.S264C | HNSC | 1 |
| p.Q474X | SKCM | 1 |
| p.R215H | UCEC | 1 |
| p.M178I | UCEC | 1 |
| p.Q547E | BLCA | 1 |
| Top |
| TissGeneCNV for SVOP |
| Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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| TissGeneFusions for SVOP |
| Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
| Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
| Chimerdb3.0 | ChiTaRs | NA | BQ639696 | ATXN1-SVOP | chr6:16695808 | chr12:109304663 | |
| Chimerdb3.0 | FusionScan | PRAD | TCGA-HC-A632-01A | VPS29-SVOP | In-Frame | chr12:110939853 | chr12:109306517 |
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| TissGeneNet for SVOP |
| Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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| TissGeneProg for SVOP |
| Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
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| Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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| Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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| Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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| TissGeneClin for SVOP |
| TissGeneDrug for SVOP |
| Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
| DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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| TissGeneDisease for SVOP |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0031117 | Peripheral Neuropathy | 1 | CTD_human |
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