HCSGD entry for KDM5A
1. General information
| Official gene symbol | KDM5A |
|---|---|
| Entrez ID | 5927 |
| Gene full name | lysine (K)-specific demethylase 5A |
| Other gene symbols | JARID1A RBBP-2 RBBP2 RBP2 |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
This gene isn't in PPI subnetwork.
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0003677 | DNA binding | IEA | molecular_function |
| GO:0003682 | Chromatin binding | IEA | molecular_function |
| GO:0003700 | Sequence-specific DNA binding transcription factor activity | TAS | molecular_function |
| GO:0005634 | Nucleus | IDA IEA | cellular_component |
| GO:0005730 | Nucleolus | IEA | cellular_component |
| GO:0005737 | Cytoplasm | IDA | cellular_component |
| GO:0006366 | Transcription from RNA polymerase II promoter | TAS | biological_process |
| GO:0007275 | Multicellular organismal development | IEA | biological_process |
| GO:0008270 | Zinc ion binding | IEA | molecular_function |
| GO:0016568 | Chromatin modification | IEA | biological_process |
| GO:0016706 | 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 | IEA | molecular_function |
| GO:0019907 | Cyclin-dependent protein kinase activating kinase holoenzyme complex | IDA | cellular_component |
| GO:0045893 | Positive regulation of transcription, DNA-templated | IDA | biological_process |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.2575933589 | 0.3683133392 | 0.9512200028 | 1.0000000000 |
- 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 | -0.2835180288 |
| GSE13712_SHEAR | Up | 0.0819888536 |
| GSE13712_STATIC | Up | 0.0015952684 |
| GSE19018 | Down | -0.1830344796 |
| GSE19899_A1 | Down | -0.0642379426 |
| GSE19899_A2 | Down | -0.3194982913 |
| PubMed_21979375_A1 | Down | -0.3994130090 |
| PubMed_21979375_A2 | Up | 0.3230832311 |
| GSE35957 | Up | 0.1502083288 |
| GSE36640 | Down | -0.3528641093 |
| GSE54402 | Down | -0.0094862479 |
| GSE9593 | Down | -0.0815327462 |
| GSE43922 | Up | 0.0102614834 |
| GSE24585 | Up | 0.2722325824 |
| GSE37065 | Up | 0.0851818574 |
| GSE28863_A1 | Up | 1.1031874665 |
| GSE28863_A2 | Up | 0.6496487346 |
| GSE28863_A3 | Down | -0.5127848403 |
| GSE28863_A4 | Up | 0.0532355887 |
| GSE48662 | Up | 0.1686388945 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
Not regulated by compounds
- Drugs
Not regulated by drugs
- MicroRNAs
- mirTarBase
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-335-5p | MIMAT0000765 | MIRT017637 | Microarray | Functional MTI (Weak) | 18185580 |
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- mirRecord
No target information from mirRecord
- mirRecord
6. Text-mining results about the gene
Gene occurances in abstracts of cellular senescence-associated articles: 3 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 23922798 | Histone demethylase retinoblastoma binding protein 2 is overexpressed in hepatocellular carcinoma and negatively regulated by hsa-miR-212 |
| 23321669 | KDM2B repressed developmental genes through cobinding with Polycomb group (PcG) proteins at transcriptional start sites, whereas it activated a module of metabolic genes, including mediators of protein synthesis and mitochondrial function, cobound by the MYC oncogene and the histone demethylase KDM5A |
| 22615382 | H3K4 demethylation by Jarid1a and Jarid1b contributes to retinoblastoma-mediated gene silencing during cellular senescence |
| 22615382 | We uncover distinct senescence-associated changes in histone-modification patterns consistent with a repressive chromatin environment and link the establishment of one of these patterns--loss of H3K4 methylation--to the retinoblastoma tumor suppressor and the H3K4 demethylases Jarid1a and Jarid1b |
| 22615382 | Our results show that Jarid1a/b-mediated H3K4 demethylation contributes to silencing of retinoblastoma target genes in senescent cells, suggesting a mechanism by which retinoblastoma triggers gene silencing |
| 22615382 | Therefore, we link the Jarid1a and Jarid1b demethylases to a tumor-suppressor network controlling cellular senescence |
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