HCSGD entry for KDM5B
1. General information
| Official gene symbol | KDM5B |
|---|---|
| Entrez ID | 10765 |
| Gene full name | lysine (K)-specific demethylase 5B |
| Other gene symbols | CT31 JARID1B PLU-1 PLU1 PUT1 RBBP2H1A |
| 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:0003677 | DNA binding | IEA | molecular_function |
| GO:0003700 | Sequence-specific DNA binding transcription factor activity | TAS | molecular_function |
| GO:0003714 | Transcription corepressor activity | IDA | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | TAS | cellular_component |
| GO:0005730 | Nucleolus | IDA | cellular_component |
| GO:0006351 | Transcription, DNA-templated | IEA | biological_process |
| GO:0008270 | Zinc ion binding | IEA | molecular_function |
| 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:0034647 | Histone demethylase activity (H3-trimethyl-K4 specific) | IDA | molecular_function |
| GO:0034648 | Histone demethylase activity (H3-dimethyl-K4 specific) | IDA | molecular_function |
| GO:0034720 | Histone H3-K4 demethylation | IDA | biological_process |
| GO:0034721 | Histone H3-K4 demethylation, trimethyl-H3-K4-specific | IDA | biological_process |
| GO:0043231 | Intracellular membrane-bounded organelle | IDA | cellular_component |
| GO:0045892 | Negative 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 |
|---|---|---|---|
| 0.1591302192 | 0.2288928460 | 0.7908735838 | 0.9212062080 |
- 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 | -0.3864457180 |
| GSE13712_SHEAR | Down | -0.2902922780 |
| GSE13712_STATIC | Down | -0.1252728512 |
| GSE19018 | Up | 0.0250992349 |
| GSE19899_A1 | Up | 0.2780787265 |
| GSE19899_A2 | Up | 0.1352749891 |
| PubMed_21979375_A1 | Up | 0.0544643207 |
| PubMed_21979375_A2 | Up | 1.1316180155 |
| GSE35957 | Up | 0.1932802318 |
| GSE36640 | Up | 0.2436981437 |
| GSE54402 | Down | -0.0927614511 |
| GSE9593 | Down | -0.0221869131 |
| GSE43922 | Up | 0.2669137236 |
| GSE24585 | Up | 0.6243563614 |
| GSE37065 | Down | -0.0890154831 |
| GSE28863_A1 | Up | 0.2104092685 |
| GSE28863_A2 | Up | 0.3689470920 |
| GSE28863_A3 | Down | -0.8168849809 |
| GSE28863_A4 | Down | -0.6481287436 |
| GSE48662 | Up | 0.0277507273 |
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-335-5p | MIMAT0000765 | MIRT016728 | Microarray | Functional MTI (Weak) | 18185580 |
| hsa-miR-29c-3p | MIMAT0000681 | MIRT020412 | Sequencing | Functional MTI (Weak) | 20371350 |
| hsa-miR-296-3p | MIMAT0004679 | MIRT038506 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-let-7i-5p | MIMAT0000415 | MIRT046553 | 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: 4 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 27114850 | In addition, HIF-1alpha induces the expression of KDM2B and KDM5B, which repress transcription by demethylating H3K4me2,3 sites (activating marks) |
| 23354547 | In this study, we investigated the functional roles of the H3K4 demethylase, jumonji, AT rich interactive domain 1B (JARID1B), an epigenetic factor required for the continuous cell growth of melanomas, in CRC |
| 23354547 | Of note, lentiviralmediated continuous JARID1B depletion resulted in the loss of epithelial differentiation and suppressed CRC cell growth, which was associated with the induction of phosphorylation by the cJun Nterminal kinase (Jnk/Sapk) and senescenceassociated betagalactosidase activity |
| 23354547 | Thus, JARID1B plays a role in CRC maintenance |
| 23354547 | JARID1B may be a novel molecular target for therapyresistant cancer cells by the induction of cellular senescence |
| 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 | Therefore, we link the Jarid1a and Jarid1b demethylases to a tumor-suppressor network controlling cellular senescence |
| 21980403 | The histone demethylase Jarid1b (Kdm5b) is a novel component of the Rb pathway and associates with E2f-target genes in MEFs during senescence |
| 21980403 | We identified the H3K4-demethylase Jarid1b as novel component of the Rb pathway in this screening model |
| 21980403 | We find that depletion of Jarid1b phenocopies knockdown of Rb1 and that Jarid1b associates with E2f-target genes during cellular senescence |
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