HCSGD entry for HIRA
1. General information
| Official gene symbol | HIRA |
|---|---|
| Entrez ID | 7290 |
| Gene full name | histone cell cycle regulator |
| Other gene symbols | DGCR1 TUP1 TUPLE1 |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0000790 | Nuclear chromatin | IEA | cellular_component |
| GO:0001649 | Osteoblast differentiation | IEA | biological_process |
| GO:0003682 | Chromatin binding | IEA | molecular_function |
| GO:0003700 | Sequence-specific DNA binding transcription factor activity | TAS | molecular_function |
| GO:0003714 | Transcription corepressor activity | TAS | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | IEA TAS | cellular_component |
| GO:0006351 | Transcription, DNA-templated | IEA | biological_process |
| GO:0006355 | Regulation of transcription, DNA-templated | IEA | biological_process |
| GO:0006357 | Regulation of transcription from RNA polymerase II promoter | TAS | biological_process |
| GO:0007369 | Gastrulation | IEA | biological_process |
| GO:0009653 | Anatomical structure morphogenesis | TAS | biological_process |
| GO:0016568 | Chromatin modification | IEA | biological_process |
| GO:0016605 | PML body | IEA | cellular_component |
| GO:0042692 | Muscle cell differentiation | IEA | biological_process |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.3329398009 | 0.8491327571 | 0.9999902473 | 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 | Up | 0.2079241086 |
| GSE13712_SHEAR | Up | 0.1838214662 |
| GSE13712_STATIC | Up | 0.3058363006 |
| GSE19018 | Down | -0.0845847601 |
| GSE19899_A1 | Up | 0.0272734637 |
| GSE19899_A2 | Up | 0.0484373029 |
| PubMed_21979375_A1 | Up | 0.8441315225 |
| PubMed_21979375_A2 | Down | -0.1389858767 |
| GSE35957 | Up | 0.2068551178 |
| GSE36640 | Down | -0.2964486459 |
| GSE54402 | Down | -0.3739027091 |
| GSE9593 | Up | 0.1657674455 |
| GSE43922 | - | - |
| GSE24585 | - | - |
| GSE37065 | - | - |
| GSE28863_A1 | Up | 0.1061690475 |
| GSE28863_A2 | Up | 0.0291150559 |
| GSE28863_A3 | Down | -0.2058646507 |
| GSE28863_A4 | Up | 0.0645402015 |
| GSE48662 | Up | 0.3535906255 |
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-877-3p | MIMAT0004950 | MIRT037000 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-17-3p | MIMAT0000071 | MIRT050759 | 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: 11 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 27423868 | The DNA replication-independent histone chaperone HIRA plays an important role in control of chromatin in nonproliferating senescent cells |
| 27423868 | While investigating the role of HIRA in senescence, we found conventional ChIP protocols to be problematic, routinely yielding too low amounts of DNA for sequencing |
| 27423868 | Using this protocol, we were easily able to immunoprecipitate HIRA with sufficient DNA for Illumina sequencing |
| 27217568 | O-linked N-acetylglucosamine transferase (OGT) interacts with the histone chaperone HIRA complex and regulates nucleosome assembly and cellular senescence |
| 27217568 | The histone chaperone HIRA complex, consisting of histone cell cycle regulator (HIRA), Ubinuclein1 (UBN1), and calcineurin binding protein 1 (CABIN1), deposits histone variant H3 |
| 27217568 | Here, we show that O-linked N-acetylglucosamine (GlcNAc) transferase (OGT), an enzyme that catalyzes O-GlcNAcylation of serine or threonine residues, interacts with UBN1, modifies HIRA, and promotes nucleosome assembly of H3 |
| 27217568 | Depletion of OGT or expression of the HIRA S231A O-GlcNAcylation-deficient mutant compromises formation of the HIRA-H3 |
| 27217568 | Importantly, OGT depletion or expression of the HIRA S231A mutant delays premature cellular senescence in primary human fibroblasts, whereas overexpression of OGT accelerates senescence |
| 25512559 | HIRA orchestrates a dynamic chromatin landscape in senescence and is required for suppression of neoplasia |
| 25512559 | Histone chaperone HIRA deposits variant histone H3 |
| 25512559 | Appropriately for a DNA replication-independent chaperone, HIRA is involved in control of chromatin in nonproliferating senescent cells, although its role is poorly defined |
| 25512559 | 3 and H4 into chromatin of senescent cells depends on HIRA |
| 25512559 | HIRA and newly deposited H3 |
| 25512559 | In senescent cells, but not proliferating cells, promoters of active genes are exceptionally enriched in H4K16ac, and HIRA is required for retention of H4K16ac |
| 25512559 | HIRA is also required for retention of H4K16ac in vivo and suppression of oncogene-induced neoplasia |
| 25512559 | These results show that HIRA controls a specialized, dynamic H4K16ac-decorated chromatin landscape in senescent cells and enforces tumor suppression |
| 20569479 | Senescent mouse cells fail to overtly regulate the HIRA histone chaperone and do not form robust Senescence Associated Heterochromatin Foci |
| 20569479 | This, in turn, activates a histone chaperone HIRA, and culminates in formation of specialized punctate domains of facultative heterochromatin, called Senescence-Associated Heterochromatin Foci (SAHF), that are enriched in the histone variant, macroH2A |
| 19029251 | Human UBN1 is an ortholog of yeast Hpc2p and has an essential role in the HIRA/ASF1a chromatin-remodeling pathway in senescent cells |
| 19029251 | Formation of SAHF in human cells is driven by a complex of histone chaperones, namely, HIRA and ASF1a |
| 19029251 | In yeast, the complex orthologous to HIRA/ASF1a contains two additional proteins, Hpc2p and Hir3p |
| 19029251 | We show that the Hpc2-related domain of UBN1, UBN2, and Hpc2p is an evolutionarily conserved HIRA/Hir-binding domain, which directly interacts with the N-terminal WD repeats of HIRA/Hir |
| 17643369 | Formation of SAHF is driven by a complex of histone chaperones, HIRA and ASF1a, and depends upon prior localization of HIRA to PML nuclear bodies |
| 17643369 | Repression of Wnt2 occurs early in senescence and independently of the pRB and p53 tumor suppressor proteins and drives relocalization of HIRA to PML bodies, formation of SAHF and senescence, likely through GSK3beta-mediated phosphorylation of HIRA |
| 17242207 | Previously, we showed that a complex of histone chaperones, histone repressor A (HIRA) and antisilencing function 1a (ASF1a), plays a key role in the formation of SAHF |
| 17242207 | Chromosome condensation depends on the ability of ASF1a to physically interact with its deposition substrate, histone H3, in addition to its cochaperone, HIRA |
| 17242198 | Definition of pRB HIRA/ASF1a-mediated formation of senescence-associated heterochromatin foci |
| 17242198 | One of the earliest steps in the senescence program is translocation of a histone chaperone, HIRA, into promyelocytic leukemia (PML) nuclear bodies |
| 17242198 | HIRA bound to another histone chaperone, ASF1a, drives formation of SAHF |
| 17242198 | Dominant negative HIRA mutants that block HIRA's localization to PML bodies prevent formation of SAHF, as does a PML-RARalpha fusion protein which disrupts PML bodies, directly supporting the idea that localization of HIRA to PML bodies is required for formation of SAHF |
| 17242198 | Significantly, translocation of HIRA to PML bodies occurs in the absence of functional pRB and p53 tumor suppressor pathways |
| 17242198 | However, our evidence indicates that downstream of HIRA's localization to PML bodies, the HIRA/ASF1a pathway cooperates with pRB and p53 to make SAHF, with the HIRA/ASF1a and pRB pathways acting in parallel |
| 17242198 | We present evidence that convergence of the HIRA/ASF1a and pRB pathways occurs through a DNAJ-domain protein, DNAJA2 |
| 17116315 | The number of dermal fibroblasts containing damaged telomeres reaches a value of over 15% of total fibroblasts, whereas 80% of cells contain high levels of the heterochromatin protein HIRA |
| 16980972 | The N- and C-terminal regions of ASF1a and ASF1b determine the different affinities of these two proteins for HIRA, by contacting regions outside the HIRA B domain |
| 15621527 | Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA |
| 15621527 | A physical complex containing HIRA and another chromatin regulator, ASF1a, is rate limiting for formation of SAHF and onset of senescence, and ASF1a is required for formation of SAHF and efficient senescence-associated cell cycle exit |
| 15621527 | These data indicate that HIRA and ASF1a drive formation of macroH2A-containing SAHF and senescence-associated cell cycle exit, via a pathway that appears to depend on flux of heterochromatic proteins through PML bodies |
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