HCSGD entry for HDAC2
1. General information
| Official gene symbol | HDAC2 |
|---|---|
| Entrez ID | 3066 |
| Gene full name | histone deacetylase 2 |
| Other gene symbols | HD2 RPD3 YAF1 |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0000122 | Negative regulation of transcription from RNA polymerase II promoter | IEA IMP | biological_process |
| GO:0000790 | Nuclear chromatin | IEA | cellular_component |
| GO:0000792 | Heterochromatin | IEA | cellular_component |
| GO:0001047 | Core promoter binding | IEA | molecular_function |
| GO:0001103 | RNA polymerase II repressing transcription factor binding | IPI | molecular_function |
| GO:0003682 | Chromatin binding | ISS | molecular_function |
| GO:0003700 | Sequence-specific DNA binding transcription factor activity | IEA | molecular_function |
| GO:0004407 | Histone deacetylase activity | IDA IEA | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | IDA | cellular_component |
| GO:0005654 | Nucleoplasm | TAS | cellular_component |
| GO:0005657 | Replication fork | IEA | cellular_component |
| GO:0005667 | Transcription factor complex | IEA | cellular_component |
| GO:0005737 | Cytoplasm | TAS | cellular_component |
| GO:0006338 | Chromatin remodeling | IC | biological_process |
| GO:0006344 | Maintenance of chromatin silencing | IMP | biological_process |
| GO:0006351 | Transcription, DNA-templated | IEA | biological_process |
| GO:0007596 | Blood coagulation | TAS | biological_process |
| GO:0008134 | Transcription factor binding | IPI | molecular_function |
| GO:0008284 | Positive regulation of cell proliferation | IEA IMP | biological_process |
| GO:0009913 | Epidermal cell differentiation | IEA ISS | biological_process |
| GO:0010870 | Positive regulation of receptor biosynthetic process | IMP | biological_process |
| GO:0010977 | Negative regulation of neuron projection development | IEA ISS | biological_process |
| GO:0016358 | Dendrite development | IEA ISS | biological_process |
| GO:0016575 | Histone deacetylation | IMP | biological_process |
| GO:0016580 | Sin3 complex | IDA | cellular_component |
| GO:0016581 | NuRD complex | IDA | cellular_component |
| GO:0017053 | Transcriptional repressor complex | IEA | cellular_component |
| GO:0019899 | Enzyme binding | IEA IPI | molecular_function |
| GO:0021766 | Hippocampus development | IEA | biological_process |
| GO:0031072 | Heat shock protein binding | IEA | molecular_function |
| GO:0031490 | Chromatin DNA binding | IEA | molecular_function |
| GO:0032041 | NAD-dependent histone deacetylase activity (H3-K14 specific) | IEA | molecular_function |
| GO:0032967 | Positive regulation of collagen biosynthetic process | IC | biological_process |
| GO:0033558 | Protein deacetylase activity | IMP | molecular_function |
| GO:0034605 | Cellular response to heat | IEA | biological_process |
| GO:0035098 | ESC/E(Z) complex | IDA | cellular_component |
| GO:0042220 | Response to cocaine | IEA | biological_process |
| GO:0042475 | Odontogenesis of dentin-containing tooth | IEA ISS | biological_process |
| GO:0042493 | Response to drug | IEA | biological_process |
| GO:0042733 | Embryonic digit morphogenesis | IEA ISS | biological_process |
| GO:0043066 | Negative regulation of apoptotic process | IEA ISS | biological_process |
| GO:0043433 | Negative regulation of sequence-specific DNA binding transcription factor activity | IMP | biological_process |
| GO:0043565 | Sequence-specific DNA binding | IDA | molecular_function |
| GO:0045347 | Negative regulation of MHC class II biosynthetic process | IC | biological_process |
| GO:0045786 | Negative regulation of cell cycle | TAS | biological_process |
| GO:0045862 | Positive regulation of proteolysis | IMP | biological_process |
| GO:0045892 | Negative regulation of transcription, DNA-templated | IC IMP | biological_process |
| GO:0045893 | Positive regulation of transcription, DNA-templated | IC | biological_process |
| GO:0045944 | Positive regulation of transcription from RNA polymerase II promoter | IMP | biological_process |
| GO:0046969 | NAD-dependent histone deacetylase activity (H3-K9 specific) | IEA | molecular_function |
| GO:0046970 | NAD-dependent histone deacetylase activity (H4-K16 specific) | IEA | molecular_function |
| GO:0048011 | Neurotrophin TRK receptor signaling pathway | TAS | biological_process |
| GO:0048714 | Positive regulation of oligodendrocyte differentiation | IEA | biological_process |
| GO:0051091 | Positive regulation of sequence-specific DNA binding transcription factor activity | IEA | biological_process |
| GO:0051896 | Regulation of protein kinase B signaling | IEA | biological_process |
| GO:0055013 | Cardiac muscle cell development | IEA | biological_process |
| GO:0060044 | Negative regulation of cardiac muscle cell proliferation | IEA | biological_process |
| GO:0060297 | Regulation of sarcomere organization | IEA | biological_process |
| GO:0060789 | Hair follicle placode formation | IEA ISS | biological_process |
| GO:0061029 | Eyelid development in camera-type eye | IEA ISS | biological_process |
| GO:0061198 | Fungiform papilla formation | IEA ISS | biological_process |
| GO:0090090 | Negative regulation of canonical Wnt signaling pathway | IEA | biological_process |
| GO:0090311 | Regulation of protein deacetylation | IEA | biological_process |
| GO:0097372 | NAD-dependent histone deacetylase activity (H3-K18 specific) | IEA | molecular_function |
| GO:2001243 | Negative regulation of intrinsic apoptotic signaling pathway | 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 |
|---|---|---|---|
| 0.8845083318 | 0.1933006801 | 0.9999902473 | 0.8523818395 |
- 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 | 0.1303932193 |
| GSE13712_SHEAR | Up | 0.0004057137 |
| GSE13712_STATIC | Down | -0.0860591730 |
| GSE19018 | Down | -0.2634660093 |
| GSE19899_A1 | Up | 0.0292118140 |
| GSE19899_A2 | Down | -0.1385669921 |
| PubMed_21979375_A1 | Up | 0.0365047506 |
| PubMed_21979375_A2 | Down | -0.1954277179 |
| GSE35957 | Down | -0.2773755420 |
| GSE36640 | Down | -0.7147694487 |
| GSE54402 | Down | -0.0212841182 |
| GSE9593 | Down | -0.4215100288 |
| GSE43922 | Down | -0.0453805206 |
| GSE24585 | Down | -0.0498060437 |
| GSE37065 | Up | 0.0129908713 |
| GSE28863_A1 | Up | 0.1521579883 |
| GSE28863_A2 | Up | 0.4499638001 |
| GSE28863_A3 | Up | 0.2745579210 |
| GSE28863_A4 | Down | -0.1396828383 |
| GSE48662 | Down | -0.1706391566 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
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- Drugs
Name | Drug | Accession number |
|---|---|---|
| Theophylline | DB00277 | APRD00082 | DB09359 |
| Aminophylline | DB01223 | APRD00329 |
| Oxtriphylline | DB01303 | - |
| Vorinostat | DB02546 | EXPT02902 |
| SB939 | DB05223 | - |
| MGCD-0103 | DB05651 | - |
| Romidepsin | DB06176 | - |
| Panobinostat | DB06603 | - |
- MicroRNAs
- mirTarBase
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-145-5p | MIMAT0000437 | MIRT007307 | Luciferase reporter assay | Functional MTI | 23499894 |
| hsa-miR-1 | MIMAT0000416 | MIRT023724 | Proteomics | Functional MTI (Weak) | 18668040 |
| hsa-miR-149-5p | MIMAT0000450 | MIRT045549 | CLASH | Functional MTI (Weak) | 23622248 |
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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: 8 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 27373322 | Oxidative stress plays a key role in driving COPD-related inflammation, even in ex-smokers, and might result in activation of the proinflammatory transcription factor nuclear factor kappaB (NF-kappaB), impaired antiprotease defenses, DNA damage, cellular senescence, autoantibody generation, and corticosteroid resistance though inactivation of histone deacetylase 2 |
| 26676829 | The expression of HDAC2 was either silenced via short hairpin (sh)RNA or induced by transfection of plasmids expressing the HDAC2 gene in certain HCC cells |
| 25940290 | OBJECTIVE: To investigate whether cigarette smoke extract (CSE) induces the senescence of skeletal muscle cells by oxidative stress-induced down-regulation of histone deacetylase 2 (HDAC2) |
| 25940290 | The expressions of HDAC2 mRNA and protein were measured by real-time quantitative PCR and Western blotting, respectively |
| 25940290 | RESULTS: Compared with the control group, MDA concentration and ROS activity significantly increased, the activities of SOD and GSH-Px significantly decreased, the expression of beta-galactosidase was up-regulated, and the expressions of HDAC2 mRNA and protein were down-regulated in the CSE group and the H2O2 group |
| 25940290 | CONCLUSION: CSE may lead to the senescence of murine skeletal muscle cells by oxidative stress-induced down-regulation of HDAC2 |
| 22842217 | Histone deacetylase 2 (HDAC2) is a class I histone deacetylase that regulates various cellular processes, such as cell cycle, senescence, proliferation, differentiation, development, apoptosis, and glucocorticoid function in inhibiting inflammatory response |
| 22842217 | HDAC2 has been shown to protect against DNA damage response and cellular senescence/premature aging via an epigenetic mechanism in response to oxidative stress |
| 19818845 | HDAC1 is a member of the class I of histone deacetylases that also includes HDAC2, -3 and -8 |
| 17409421 | Histone deacetylase 2 modulates p53 transcriptional activities through regulation of p53-DNA binding activity |
| 17409421 | Through the use of stable MCF7 cell lines which inducibly express short hairpin RNA targeting HDAC2, we found that HDAC2 plays important roles in the p53 pathway |
| 17409421 | Importantly, we found that knockdown of HDAC2 enhanced p53-dependent trans-repression and trans-activation of a subset of target genes |
| 11418121 | Histone deacetylases in replicative senescence: evidence for a senescence-specific form of HDAC-2 |
| 11418121 | While by anion exchange chromatography we found a single peak of activity in extracts from young cells, which coincided with the elution of both HDAC-1 and HDAC-2, in senescent cells a second peak of activity was found |
| 11418121 | This second peak of activity is associated with HDAC-2 but does not contain HDAC-1 |
| 11418121 | These results suggest that HDAC-2 is present in at least two distinct forms, one of which is specific for senescent cells |
| 11257101 | The failure to deacetylate and thus repress transcription by the Class I histone deacetylases HDAC1 and HDAC2 due to disruption of the Rb family of proteins has been firmly established as a mechanism leading to increases in growth rate and cellular proliferation |
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