HCSGD entry for CBX5
1. General information
| Official gene symbol | CBX5 |
|---|---|
| Entrez ID | 23468 |
| Gene full name | chromobox homolog 5 |
| Other gene symbols | HP1 HP1A |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0000118 | Histone deacetylase complex | IEA ISS | cellular_component |
| GO:0000776 | Kinetochore | IEA | cellular_component |
| GO:0003682 | Chromatin binding | IEA | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | IDA | cellular_component |
| GO:0005635 | Nuclear envelope | TAS | cellular_component |
| GO:0005654 | Nucleoplasm | TAS | cellular_component |
| GO:0005720 | Nuclear heterochromatin | IEA TAS | cellular_component |
| GO:0005730 | Nucleolus | IDA IEA | cellular_component |
| GO:0005737 | Cytoplasm | IDA | cellular_component |
| GO:0007596 | Blood coagulation | TAS | biological_process |
| GO:0010369 | Chromocenter | IEA | cellular_component |
| GO:0016032 | Viral process | IEA | biological_process |
| GO:0016605 | PML body | IMP | cellular_component |
| GO:0017053 | Transcriptional repressor complex | IEA ISS | cellular_component |
| GO:0019899 | Enzyme binding | IPI | molecular_function |
| GO:0030674 | Protein binding, bridging | IEA ISS | molecular_function |
| GO:0031618 | Nuclear centromeric heterochromatin | NAS | cellular_component |
| GO:0035064 | Methylated histone residue binding | IDA | molecular_function |
| GO:0035097 | Histone methyltransferase complex | IEA ISS | cellular_component |
| GO:0042803 | Protein homodimerization activity | IEA | molecular_function |
| GO:0042826 | Histone deacetylase binding | IEA | molecular_function |
| GO:0045892 | Negative regulation of transcription, DNA-templated | IDA IEA IMP | biological_process |
| GO:0070491 | Repressing transcription factor binding | IEA ISS | molecular_function |
| GO:1990226 | Histone methyltransferase binding | IPI | molecular_function |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.0514866988 | 0.0144941796 | 0.4980063900 | 0.2367004963 |
- 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 | -0.2293297024 |
| GSE13712_SHEAR | Down | -0.1729590125 |
| GSE13712_STATIC | Down | -0.6746578978 |
| GSE19018 | Up | 0.1132115563 |
| GSE19899_A1 | Down | -0.6898305485 |
| GSE19899_A2 | Down | -1.1860199636 |
| PubMed_21979375_A1 | Down | -0.9109564804 |
| PubMed_21979375_A2 | Down | -1.0268077725 |
| GSE35957 | Down | -0.0948509407 |
| GSE36640 | Down | -1.5679562845 |
| GSE54402 | Down | -0.1177759783 |
| GSE9593 | Down | -0.4530923493 |
| GSE43922 | Down | -0.1998322492 |
| GSE24585 | Up | 0.8617173299 |
| GSE37065 | Down | -0.3889895067 |
| GSE28863_A1 | Up | 1.8569612421 |
| GSE28863_A2 | Up | 2.0205637203 |
| GSE28863_A3 | Up | 0.5120638598 |
| GSE28863_A4 | Up | 0.2427122398 |
| GSE48662 | Down | -0.5032703837 |
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-98-5p | MIMAT0000096 | MIRT004950 | qRT-PCR | Functional MTI (Weak) | 17942906 |
| hsa-miR-1 | MIMAT0000416 | MIRT023531 | Proteomics | Functional MTI (Weak) | 18668040 |
| hsa-miR-484 | MIMAT0002174 | MIRT041993 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-339-5p | MIMAT0000764 | MIRT042774 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-320a | MIMAT0000510 | MIRT044429 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-197-3p | MIMAT0000227 | MIRT048055 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-92a-3p | MIMAT0000092 | MIRT049796 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-let-7e-5p | MIMAT0000066 | MIRT051655 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-let-7b-5p | MIMAT0000063 | MIRT052318 | 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: 8 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 26527005 | This correlates with ubiquitin-mediated degradation of SENP7, which promotes senescence by increasing HP1alpha sumoylation and the associated epigenetic gene silencing |
| 26160351 | Although WRN plays a role in DNA repair, WRN exerted its effects on aging via maintaining heterochromatin, evidenced by reduced levels of interacting chromatin regulators heterochromatin protein 1alpha (HP1alpha), suppressor of variegation 3-9 homolog 1 (SUV39H1), and lamina-associated polypeptide 2beta (LAP2beta) as well as modified histone H3K9me3 |
| 26160351 | Reducing expression of chromatin modeling co-factors SUV39H1 or HP1alpha in wild-type MSCs recapitulates the phenotype of WRN deficiency, resulting in reduced H3K9me3 levels and increased senescence without induction of markers of DNA damage, suggesting that chromatin disorganization and not DNA damage is responsible for the pathology of WS during aging in animals |
| 26160351 | Ectopic expression of HP1alpha restored H3K9me3 levels and repressed senescence in WRN-deficient MSCs |
| 25931448 | We show that WRN associates with heterochromatin proteins SUV39H1 and HP1alpha and nuclear lamina-heterochromatin anchoring protein LAP2beta |
| 25515777 | Moreover, Patz1(+/-) MEFs displayed higher levels of acetylated histone H3, H3K4me2, H3K4me3, H3K36me3 and lower levels of histone H3K9me3 and HP1alpha, indicating that heterozygous knockout of Patz1 results in a globally open chromatin which is more accessible for transcriptional activation |
| 24584199 | The results showed that the level of HP1alpha was significantly increased in Zmpste24(-/-) cells |
| 24584199 | Although prelamin A interacted with HP1alpha in a manner similar to lamin A, HP1alpha associated with the nuclease-resistant nuclear matrix fraction was remarkably increased in Zmpste24(-/-) MEFs compared with that in wild-type littermate controls |
| 24584199 | In wild-type cells, HP1alpha was phosphorylated at Thr50, and the phosphorylation was maximized around 30 min, gradually dispersed 2 h after DNA damage induced by camptothecin |
| 24584199 | However, the peak of HP1alpha phosphorylation was significantly compromised and appeared until 2 h, which is correlated with the delayed maximal formation of gamma-H2AX foci in Zmpste24(-/-) MEFs |
| 24584199 | Furthermore, knocking down HP1alpha by siRNA alleviated the delayed DNA damage response and accelerated senescence in Zmpste24(-/-) MEFs, evidenced by the rescue of the delayed gamma-H2AX foci formation, downregulation of p16, and reduction of senescence-associated beta-galactosidase activity |
| 24584199 | Taken together, these findings establish a functional link between prelamin A, HP1alpha, chromatin remodeling, DNA repair, and early senescence in Zmpste24-deficient mice, suggesting a potential therapeutic strategy for laminopathy-based premature aging via the intervention of HP1alpha |
| 23045645 | SENP7L exhibits an interaction domain for the epigenetic remodeler heterochromatin protein 1 alpha (HP1alpha) and isopeptidase activity against SUMO-modified HP1alpha |
| 23045645 | Loss of this interaction domain, as observed with SENP7S, favors HP1alpha SUMOylation |
| 23045645 | SUMOylated HP1alpha is enriched at E2F-responsive and mesenchymal gene promoters, silences transcription of these genes, and promotes cellular senescence |
| 23045645 | Elevated SENP7L renders HP1alpha hypo-SUMOylated, which relieves transcriptional repression of the same genes and concurrently decreases transcription of epithelial-promoting genes via an HP1alpha-independent mechanism |
| 20695923 | Heterochromatin marks HP1gamma, HP1alpha and H3K9me3, and DNA damage response activation in human testis development and germ cell tumours |
| 20695923 | Here, we show distinct cell-type- and cancer-stage-associated patterns of key heterochromatin marks: histone H3 trimethylated at lysine 9 (H3K9me3) and heterochromatic adaptor proteins HP1alpha and HP1gamma, compared with the gammaH2AX marker of endogenously activated DNA damage response (DDR) and proliferation markers in normal human foetal (n=4) and adult (n=29) testes, pre-invasive carcinoma in situ (CIS; n=26) lesions and a series of overt germ cell tumours, including seminomas (n=26), embryonal carcinomas (n=18) and teratomas (n=11) |
| 20695923 | Among striking findings were high levels of HP1gamma in foetal gonocytes, CIS and seminomas; enhanced multimarker heterochromatinization without DDR activation in CIS; and enhanced HP1alpha in teratoma structures with epithelial and neuronal differentiation |
| 17242207 | In cells entering senescence, HP1gamma, but not the related proteins HP1alpha and HP1beta, becomes phosphorylated on serine 93 |
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