HCSGD entry for RPE
1. General information
| Official gene symbol | RPE |
|---|---|
| Entrez ID | 6120 |
| Gene full name | ribulose-5-phosphate-3-epimerase |
| Other gene symbols | RPE2-1 |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
This gene isn't in Literature mining network.
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0004750 | Ribulose-phosphate 3-epimerase activity | EXP IDA IEA | molecular_function |
| GO:0005829 | Cytosol | TAS | cellular_component |
| GO:0005975 | Carbohydrate metabolic process | IDA IEA TAS | biological_process |
| GO:0006098 | Pentose-phosphate shunt | IDA IEA TAS | biological_process |
| GO:0016857 | Racemase and epimerase activity, acting on carbohydrates and derivatives | IEA | molecular_function |
| GO:0042802 | Identical protein binding | IPI | molecular_function |
| GO:0042803 | Protein homodimerization activity | IPI | molecular_function |
| GO:0044281 | Small molecule metabolic process | TAS | biological_process |
| GO:0046872 | Metal ion binding | IDA IEA | molecular_function |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.9738302458 | 0.1454007143 | 0.9999902473 | 0.7355549106 |
- Individual experiment result
( "-" represent NA in the specific microarray platform )
( "-" represent NA in the specific microarray platform )
| Data source | Up or down | Log fold change |
|---|---|---|
| GSE11954 | Down | -0.1368049143 |
| GSE13712_SHEAR | Up | 0.0862250682 |
| GSE13712_STATIC | Up | 0.2170652871 |
| GSE19018 | Down | -0.0703555541 |
| GSE19899_A1 | Down | -0.1257314591 |
| GSE19899_A2 | Down | -0.2169863703 |
| PubMed_21979375_A1 | Down | -0.2078564380 |
| PubMed_21979375_A2 | Down | -0.3965044686 |
| GSE35957 | Up | 0.0876428627 |
| GSE36640 | Down | -0.2836181382 |
| GSE54402 | Up | 0.0045959282 |
| GSE9593 | Up | 0.0000232346 |
| GSE43922 | Down | -0.0437894267 |
| GSE24585 | Down | -0.0205771934 |
| GSE37065 | Down | -0.1717285494 |
| GSE28863_A1 | - | - |
| GSE28863_A2 | - | - |
| GSE28863_A3 | - | - |
| GSE28863_A4 | - | - |
| GSE48662 | Down | -0.4526340760 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
Not regulated by compounds
- Drugs
Not regulated by drugs
- MicroRNAs
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-142-3p | MIMAT0000434 | MIRT021632 | Microarray | Functional MTI (Weak) | 17612493 |
| hsa-miR-1260b | MIMAT0015041 | MIRT052778 | CLASH | Functional MTI (Weak) | 23622248 |
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- mirRecord
No target information from mirRecord
6. Text-mining results about the gene
Gene occurances in abstracts of cellular senescence-associated articles: 19 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 27917303 | METHODS: The expression of miR-146a and miR-146b was examined in the neuroretina and RPE/choroid in mice aged from 2 months to 24 months |
| 27917303 | RESULTS: miR-146a and miR-146b was upregulated during aging of RPE/choroid but not neuroretina, supporting tissue-specific regulation of aging-related miRNAs in retinal tissues |
| 27917303 | CONCLUSIONS: Elevation of miR-146a and miR-146b in the aging RPE/choroid but not neuroretina suggests a role for miRNAs in inflammaging in the RPE/choroid |
| 27115165 | Expressions of IL-6 and IL-8 in RPE/choroid were analyzed using RT-PCR |
| 27115165 | Expressions of proinflammatory IL-6 and IL-8 were significantly upregulated in RPE/choroid of aged SAMP8 mice |
| 26934949 | However, the molecular mechanisms underlying RPE dysfunction are not well understood |
| 25385658 | The accumulation of vacuoles and the loss of basal infoldings in the RPE were identified using an electron microscope |
| 25385658 | In conclusion, our results confirm the effects of Abeta(1-42) peptide on RPE senescence in vivo |
| 23964074 | The P2X7R was expressed on apical and basolateral membranes of mouse RPE; mRNA expression of P2X7R and extracellular ATP marker NTPDase1 was raised in RPE tissue from the ABCA4(-/-) mouse model of Stargardt's retinal degeneration |
| 23169885 | HFE is expressed in retinal pigment epithelium (RPE), and Hfe(-/-) mice develop age-related iron accumulation and retinal degeneration associated with RPE hyperproliferation |
| 23169885 | Here, the mechanism underlying the hyperproliferative phenotype in RPE was investigated |
| 21526120 | It is thought that some peripheral cells migrate centrally to correct age-related central RPE loss |
| 21526120 | Low density RPE cultures obtained from adult mice revealed significantly greater levels of proliferation when derived from peripheral compared to central tissue, but this significance declined with increasing culture density |
| 21526120 | A range of other genes were investigated both in vivo and in vitro associated with RPE proliferation in order to identify gene expression differences between the centre and the periphery |
| 19932443 | Autofluorescence of the A2E fluorophore within retinal pigment epithelial (RPE) lipofuscin affords the opportunity for noninvasive evaluation of age- and disease-related pathophysiological changes in the human retina |
| 19932443 | RESULTS: The data reveal improvements in all measures of visual function, subjective improvement in vision and mental functioning on the VFQ 25, and visible clearing of RPE lipofuscin |
| 19458325 | This study was designed to improve the understanding of proteomic changes that underlie RPE senescence |
| 19274853 | The loss of vision involves primarily a progressive degeneration and cell death of postmitotic retinal pigment epithelial cells (RPE), which secondarily evokes adverse effects on photoreceptor cells |
| 19171648 | Therefore, reduction of oxidative stress and minimizing TGF-beta may help to prevent senescence-associated changes in the RPE as seen in early age-related macular degeneration |
| 18817863 | Immunofluorescence assay revealed that the 20S proteasome was concentrated in RPE nucleus, and redistributed partly to the peri-nuclear regions in old RPE passages |
| 18817863 | Further analysis of the proteasome-to-oxidized protein ratio indicated a preferred protection of the RPE nuclear proteins by the 20S proteasome, which also subsided remarkably as a function of the cell ageing |
| 18385095 | The protective effect of quercetin against oxidative stress in the human RPE in vitro |
| 18226607 | The prime target of the disease is the retinal pigmented epithelium (RPE) |
| 18226607 | To study the molecular mechanisms underlying RPE degeneration, we investigated whether repetitive oxidative stress induced premature senescence in RPE cells from the human ARPE-19 cell line |
| 11381070 | In 16 of 17 eyes, IGFBP-2 mRNA expression was detected in the RPE |
| 10643311 | CONCLUSIONS: The feeding of A2-E/LDL complexes to cultured RPE-cells proved to be highly effective in specific loading of the lysosomal compartment, providing a suitable in vitro cell culture model for RPE aging and the investigation of A2-E-effects on lysosomal functions in RPE cells |
| 10576245 | RPE cells irradiated by near-ultraviolet (NUV) were characterized at cellular, biochemical and molecular levels in order to determine whether light-induced RPE changes contribute to the senescence of RPE cells in vitro |
| 10576245 | After repeated NUV irradiation, RPE proliferation was markedly suppressed |
| 10576245 | The phenomena of downregulation of the possible senescence markers imply that photochemical reactions of RPE cells accelerate the process of RPE senescence |
| 10562657 | Several studies by Burke and others illustrate the relationship between donor age and replicative lifespan, the relationship between geographical location of RPE in the posterior pole and replicative lifespan, and the phenomena of altered cellular morphology and decreased culture saturation density for senescent RPE cells |
| 10562657 | Our results show that RPE cultures accumulate beta galactosidase positive cells as a function of the number of population doublings and that these data correlate with the shortening of chromosomal telomeres to a functional limit observed for many human cell types at senescence |
| 10562657 | Basically, the same histochemical procedure is used with a post-staining bleaching step to clearly visualize staining in the RPE |
| 10562657 | These studies represent a first effort to determine if senescent RPE are present in vivo |
| 669891 | We have quantitated the content of LPG in human retinal pigment epithelium (RPE) as a function of age |
| 669891 | The RPE topographic distribution of LPG revealed an increased accumulation in the posterior pole, with a consistent dip at the fovea |
| 669891 | The ratio of lipofusion accumulation at the posterior pole, to the total RPE, remained constant throughout life |
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