TissGeneSummary for RDH8 |
Gene summary |
Basic gene information | Gene symbol | RDH8 |
Gene name | retinol dehydrogenase 8 (all-trans) | |
Synonyms | PRRDH|SDR28C2 | |
Cytomap | UCSC genome browser: 19p13.2 | |
Type of gene | protein-coding | |
RefGenes | NM_015725.2, | |
Description | photoreceptor outer segment all-trans retinol dehydrogenaseretinol dehydrogenase 8short chain dehydrogenase/reductase family 28C, member 2 | |
Modification date | 20141207 | |
dbXrefs | MIM : 608575 | |
HGNC : HGNC | ||
Ensembl : ENSG00000080511 | ||
HPRD : 16350 | ||
Vega : OTTHUMG00000180392 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RDH8 | |
BioGPS: 50700 | ||
Pathway | NCI Pathway Interaction Database: RDH8 | |
KEGG: RDH8 | ||
REACTOME: RDH8 | ||
Pathway Commons: RDH8 | ||
Context | iHOP: RDH8 | |
ligand binding site mutation search in PubMed: RDH8 | ||
UCL Cancer Institute: RDH8 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | TestisEye | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCTUVM | |
Reference showing the relevant tissue of RDH8 | ||
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 RDH8 |
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) |
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) |
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. |
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) |
- 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 |
KIRC | -1.151978844 | 0.589826712 | -1.741805556 | 4.14E-12 | 1.67E-11 |
KICH | -1.210066177 | 1.699569823 | -2.909636 | 3.72E-07 | 1.52E-06 |
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TissGene-miRNA for RDH8 |
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 RDH8 |
TissGeneSNV for RDH8 |
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. |
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) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.E187K | SKCM | 3 |
p.V270M | STAD | 2 |
p.A198V | GBM | 2 |
p.P242S | SKCM | 1 |
p.G294V | SARC | 1 |
p.R307H | BLCA | 1 |
p.S15F | SKCM | 1 |
p.L95M | HNSC | 1 |
p.S31F | SKCM | 1 |
p.L299M | UCEC | 1 |
p.G137E | SKCM | 1 |
p.R310H | DLBC | 1 |
p.R309Q | COAD | 1 |
p.R303H | STAD | 1 |
p.E17K | SKCM | 1 |
p.S72L | READ | 1 |
p.H27D | OV | 1 |
p.I80S | UCEC | 1 |
p.Q4R | SKCM | 1 |
p.K246N | ACC | 1 |
p.D132H | BLCA | 1 |
p.G227D | LUAD | 1 |
p.L87Q | OV | 1 |
p.Q276* | LUAD | 1 |
p.Q256* | LUAD | 1 |
p.V142L | BLCA | 1 |
p.R245M | STAD | 1 |
p.R120S | STAD | 1 |
p.G11E | SKCM | 1 |
p.V149F | LUSC | 1 |
p.V87M | LGG | 1 |
p.R279Q | LUSC | 1 |
p.E83Q | LUAD | 1 |
p.L126R | PAAD | 1 |
p.C99W | ACC | 1 |
p.V290M | STAD | 1 |
p.F171I | LUAD | 1 |
p.T266M | STAD | 1 |
p.P252S | UCEC | 1 |
p.K44N | STAD | 1 |
p.T190N | UCEC | 1 |
p.E17D | LGG | 1 |
p.E69A | SKCM | 1 |
p.V142F | LIHC | 1 |
p.R255X | COAD | 1 |
p.A23T | LUAD | 1 |
p.L146R | PAAD | 1 |
p.E91Q | LUAD | 1 |
p.I30F | LUAD | 1 |
p.A170V | LUSC | 1 |
p.P310Q | COAD | 1 |
p.R283H | STAD | 1 |
p.G207D | LUAD | 1 |
p.R140S | STAD | 1 |
p.S158F | LUSC | 1 |
p.E211K | CESC | 1 |
p.E71Q | LUAD | 1 |
p.T281A | UCEC | 1 |
p.V159M | LIHC | 1 |
p.V203A | PRAD | 1 |
p.R133W | COAD | 1 |
p.G252E | SKCM | 1 |
p.S31Y | LUAD | 1 |
p.G117W | LUAD | 1 |
p.E66K | SKCM | 1 |
p.G148D | PCPG | 1 |
p.M202T | COAD | 1 |
p.L141P | SKCM | 1 |
p.T326K | LUAD | 1 |
p.N258S | COAD | 1 |
p.E211G | SKCM | 1 |
p.F165L | UCEC | 1 |
p.T266M | UCEC | 1 |
p.E103Q | LUAD | 1 |
p.R254H | UCEC | 1 |
p.R225M | STAD | 1 |
p.V298L | LUAD | 1 |
p.S142I | OV | 1 |
p.D105E | SKCM | 1 |
p.T38A | UCEC | 1 |
p.L115M | HNSC | 1 |
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TissGeneCNV for RDH8 |
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 RDH8 |
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 |
TCGAfusionPortal | PRADA | KIRC | TCGA-B0-5084-01A | ELOF1-RDH8 | 5UTR-CDS | Chr19:11670006 | Chr19:10127733 |
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TissGeneNet for RDH8 |
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 RDH8 |
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. |
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. |
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. |
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 RDH8 |
TissGeneDrug for RDH8 |
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 RDH8 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0035304 | Retinal Degeneration | 3 | BeFree |
umls:C0027092 | Myopia | 1 | BeFree,GAD |
umls:C0235272 | Retinal damage | 1 | BeFree |
umls:C1998028 | Photoreceptor degeneration | 1 | BeFree |