HCSGD entry for APEX1

1. General information

Official gene symbolAPEX1
Entrez ID328
Gene full nameAPEX nuclease (multifunctional DNA repair enzyme) 1
Other gene symbolsAPE APE1 APEN APEX APX HAP1 REF1
Links to Entrez GeneLinks to Entrez Gene

2. Neighbors in the network

color bar

3. Gene ontology annotation

GO ID

GO term

Evidence

Category

GO:0000737DNA catabolic process, endonucleolyticIDA TASbiological_process
GO:0003677DNA bindingIDA IEAmolecular_function
GO:0003684Damaged DNA bindingIDAmolecular_function
GO:0003713Transcription coactivator activityIDAmolecular_function
GO:0003714Transcription corepressor activityTASmolecular_function
GO:0003723RNA bindingIEAmolecular_function
GO:0003906DNA-(apurinic or apyrimidinic site) lyase activityIDA TASmolecular_function
GO:0004519Endonuclease activityIDA IEAmolecular_function
GO:0004520Endodeoxyribonuclease activityTASmolecular_function
GO:0004521Endoribonuclease activityIEAmolecular_function
GO:0004523RNA-DNA hybrid ribonuclease activityTASmolecular_function
GO:0004528Phosphodiesterase I activityTASmolecular_function
GO:0004844Uracil DNA N-glycosylase activityTASmolecular_function
GO:0005515Protein bindingIPImolecular_function
GO:0005622IntracellularIEAcellular_component
GO:0005634NucleusIDA IEAcellular_component
GO:0005654NucleoplasmIDA TAScellular_component
GO:0005667Transcription factor complexIEAcellular_component
GO:0005730NucleolusIDAcellular_component
GO:0005737CytoplasmIDAcellular_component
GO:0005739MitochondrionIDA IEAcellular_component
GO:0005783Endoplasmic reticulumTAScellular_component
GO:0005813CentrosomeIDAcellular_component
GO:0005840RibosomeTAScellular_component
GO:0006281DNA repairIDA IEA TASbiological_process
GO:0006284Base-excision repairTASbiological_process
GO:0006308DNA catabolic processIDA TASbiological_process
GO:0006310DNA recombinationIEAbiological_process
GO:0006351Transcription, DNA-templatedIEAbiological_process
GO:0006355Regulation of transcription, DNA-templatedIEAbiological_process
GO:0007568AgingIEAbiological_process
GO:0008081Phosphoric diester hydrolase activityIDAmolecular_function
GO:00084083'-5' exonuclease activityIDA TASmolecular_function
GO:0014912Negative regulation of smooth muscle cell migrationIEAbiological_process
GO:0016491Oxidoreductase activityIDAmolecular_function
GO:0016607Nuclear speckIDAcellular_component
GO:0016890Site-specific endodeoxyribonuclease activity, specific for altered baseIDAmolecular_function
GO:0031490Chromatin DNA bindingIDAmolecular_function
GO:0032403Protein complex bindingIEAmolecular_function
GO:0042493Response to drugIEAbiological_process
GO:0043488Regulation of mRNA stabilityIMPbiological_process
GO:0045454Cell redox homeostasisIEAbiological_process
GO:0045739Positive regulation of DNA repairIDAbiological_process
GO:0046872Metal ion bindingIDAmolecular_function
GO:0048471Perinuclear region of cytoplasmIDAcellular_component
GO:0051059NF-kappaB bindingIEAmolecular_function
GO:0055114Oxidation-reduction processIDAbiological_process
GO:0070301Cellular response to hydrogen peroxideIEAbiological_process
GO:0071320Cellular response to cAMPIEAbiological_process
GO:0071375Cellular response to peptide hormone stimulusIEAbiological_process
GO:0080111DNA demethylationIDAbiological_process
GO:0090305Nucleic acid phosphodiester bond hydrolysisIDA TASbiological_process
GO:0090501RNA phosphodiester bond hydrolysisTASbiological_process
GO:0090502RNA phosphodiester bond hydrolysis, endonucleolyticTASbiological_process
GO:1900087Positive regulation of G1/S transition of mitotic cell cycleIEAbiological_process
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4. Expression levels in datasets

  • Meta-analysis result

p-value upp-value downFDR upFDR down
0.88541252230.01812527640.99999024730.2633632450

  • Individual experiment result
    ( "-" represent NA in the specific microarray platform )

Data sourceUp or downLog fold change
GSE11954Up0.7324856837
GSE13712_SHEARDown-0.4765475868
GSE13712_STATICDown-0.3870861474
GSE19018Down-0.7688162087
GSE19899_A1Down-0.7736736802
GSE19899_A2Down-0.3774167527
PubMed_21979375_A1Down-0.7672099932
PubMed_21979375_A2Down-0.4984468344
GSE35957Down-0.3052349478
GSE36640Down-0.6469229352
GSE54402Up0.1336399031
GSE9593Down-0.1976323411
GSE43922Down-0.3444698033
GSE24585Down-0.1111248568
GSE37065Down-0.1942498032
GSE28863_A1Down-0.1007968638
GSE28863_A2Down-0.0645705469
GSE28863_A3Up0.4833615867
GSE28863_A4Up0.3427808650
GSE48662Down-0.3192612796

5. Regulation relationships with compounds/drugs/microRNAs

  • Compounds

Compound

Target

Confidence score

Uniprot

CHEMBL460563CHEMBL56199P27695
CHEMBL500760CHEMBL56199P27695
CHEMBL450862CHEMBL56199P27695
CHEMBL467863CHEMBL56199P27695
CHEMBL466401CHEMBL56199P27695
CHEMBL462689CHEMBL56199P27695
CHEMBL468891CHEMBL56199P27695
CHEMBL448036CHEMBL56199P27695
CHEMBL517107CHEMBL56199P27695
CHEMBL512214CHEMBL56199P27695
CHEMBL442876CHEMBL56199P27695
CHEMBL467435CHEMBL56199P27695
CHEMBL460802CHEMBL56199P27695
CHEMBL503504CHEMBL56199P27695
CHEMBL460994CHEMBL56199P27695
CHEMBL467436CHEMBL56199P27695
CHEMBL469109CHEMBL56199P27695
CHEMBL145352CHEMBL56199P27695
CHEMBL509918CHEMBL56199P27695
CHEMBL500208CHEMBL56199P27695
CHEMBL517724CHEMBL56199P27695
CHEMBL460784CHEMBL56199P27695
CHEMBL447111CHEMBL56199P27695
CHEMBL510282CHEMBL56199P27695
CHEMBL455496CHEMBL56199P27695
CHEMBL512761CHEMBL56199P27695
CHEMBL446487CHEMBL56199P27695
CHEMBL512261CHEMBL56199P27695
CHEMBL448841CHEMBL56199P27695
CHEMBL468074CHEMBL56199P27695
CHEMBL461842CHEMBL56199P27695
CHEMBL460982CHEMBL56199P27695
CHEMBL461840CHEMBL56199P27695
CHEMBL459939CHEMBL56199P27695
CHEMBL461841CHEMBL56199P27695
CHEMBL462690CHEMBL56199P27695
CHEMBL460348CHEMBL56199P27695
CHEMBL460782CHEMBL56199P27695
CHEMBL509657CHEMBL56199P27695
CHEMBL504500CHEMBL56199P27695
CHEMBL468072CHEMBL56199P27695
CHEMBL469106CHEMBL56199P27695
CHEMBL511379CHEMBL56199P27695
CHEMBL517857CHEMBL56199P27695
CHEMBL462261CHEMBL56199P27695
CHEMBL462260CHEMBL56199P27695
CHEMBL466206CHEMBL56199P27695
CHEMBL498855CHEMBL56199P27695
CHEMBL468905CHEMBL56199P27695
CHEMBL461633CHEMBL56199P27695
CHEMBL505863CHEMBL56199P27695
CHEMBL460804CHEMBL56199P27695
CHEMBL512049CHEMBL56199P27695
CHEMBL462049CHEMBL56199P27695
CHEMBL460353CHEMBL56199P27695
CHEMBL448958CHEMBL56199P27695
CHEMBL409315CHEMBL56199P27695
CHEMBL460783CHEMBL56199P27695
CHEMBL510354CHEMBL56199P27695
CHEMBL449985CHEMBL56199P27695
CHEMBL460571CHEMBL56199P27695
CHEMBL460347CHEMBL56199P27695
CHEMBL468073CHEMBL56199P27695
CHEMBL459501CHEMBL56199P27695
CHEMBL512260CHEMBL56199P27695
CHEMBL460570CHEMBL56199P27695
CHEMBL503254CHEMBL56199P27695
CHEMBL467237CHEMBL56199P27695
CHEMBL571611CHEMBL56198P27695
CHEMBL569165CHEMBL56198P27695
CHEMBL578390CHEMBL56198P27695
CHEMBL571874CHEMBL56198P27695
CHEMBL570293CHEMBL56198P27695
CHEMBL577095CHEMBL56198P27695
CHEMBL577297CHEMBL56198P27695
CHEMBL569164CHEMBL56198P27695
CHEMBL568769CHEMBL56198P27695
CHEMBL572065CHEMBL56198P27695
CHEMBL568996CHEMBL56198P27695
CHEMBL569384CHEMBL56198P27695
CHEMBL568995CHEMBL56198P27695
CHEMBL572060CHEMBL56198P27695
CHEMBL583347CHEMBL56198P27695
CHEMBL571828CHEMBL56198P27695
CHEMBL571827CHEMBL56198P27695
CHEMBL568994CHEMBL56198P27695
CHEMBL570986CHEMBL56198P27695
CHEMBL570294CHEMBL56198P27695
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  • Drugs

Name

Drug

Accession number

LucanthoneDB04967 -

  • MicroRNAs

  • mirTarBase

MiRNA_name

mirBase ID

miRTarBase ID

Experiment

Support type

References (Pubmed ID)

hsa-miR-935MIMAT0004978MIRT036701CLASHFunctional MTI (Weak)23622248
hsa-miR-185-5pMIMAT0000455MIRT045386CLASHFunctional MTI (Weak)23622248
hsa-miR-100-5pMIMAT0000098MIRT048405CLASHFunctional MTI (Weak)23622248
hsa-miR-99a-5pMIMAT0000097MIRT048610CLASHFunctional MTI (Weak)23622248
hsa-miR-17-5pMIMAT0000070MIRT050830CLASHFunctional 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: 5 abstracts the gene occurs.


PubMed ID of the article

Sentenece the gene occurs

27106773To evaluate the expression of markers correlated with cellular senescence and DNA damage (8-hydroxy-2'-deoxy-guanosine (8-OHdG), p53, p21, APE1/Ref-1 (APE1), interleukin (IL-6 and IL-8) in placentas from healthy and pathologic pregnancies
27106773In this study, we demonstrated a significant influence of gestational age on the expression in the trophoblast of 8-OHdG, p53, p21, APE1, and IL-6
27106773In placentas of cases affected by PE, HELLP, or IUGR, there was an increased expression of 8-OHdG, p53, APE1, and IL-6 compared to controls (only IL-8 was significantly decreased in cases)
27106773In both groups of pathology between 22- and 34-week gestation and after 34-week gestation, APE1 levels were higher in the trophoblast of women affected by hypertensive disorders of pregnancy than women carrying an IUGR fetus
27106773Placentas from pathological pregnancies had an altered expression of 8-OHdG, p53, p21, APE1, IL-6, and IL-8
26224580Statins also impaired the expression of DNA repair genes, including XRCC4, XRCC6, and Apex1
25682875Structure/function analysis established that a single Cut repeat domain can stimulate the DNA binding, Schiff-base formation, glycosylase and AP-lyase activities of 8-oxoguanine DNA glycosylase 1, OGG1
25682875Strikingly and in contrast to previous reports, OGG1 exhibits efficient AP-lyase activity in the presence of a Cut repeat
25363496Apurinic/apyrimidinic endonuclease 1 on aging-associated deteriorations in rat kidneys
25363496We have reported a possible involvement of apurinic/apyrimidinic endonuclease 1 (APE1), one of the DNA repair pathways, in various nephropathy models and found that there is a close connection between APE1 and p53-dependent apoptosis
25363496Western blot assay was compared for p53, bax, cleaved caspase 3, rH2AX, and APE1
25363496Immunohistochemical staining of 8-hydroxy-2'-deoxyguanosine (8-OHdG) and APE1 was performed
25363496All the checked variables were significantly increased with aging: 1) increased p53, bax, and caspase 3 may activate the apoptotic pathway, 2) increased rH2AX and 8-OHdG immunolocalization in the proximal convoluted tubules might mean augmented DNA damage, and 3) increased APE1 might be caused by the immunoreactivity in the distal convoluted tubules while decreased in the proximal convoluted tubules
25363496These results suggested that APE1 might have little protective effects on p53-dependent apoptosis irrespective of DNA repair activities in aged renal proximal tubules
19492297Downregulation of APE1/Ref-1 is involved in the senescence of mesenchymal stem cells
19492297Interestingly, even though endogenous superoxide increased in a replicative senescence model, the expression of APE1/Ref-1, which is sensitive to intracellular redox state, decreased
19492297This change is related to the p53 activity that negatively regulates APE1/Ref-1
19492297Overexpression of APE1/Ref-1 suppressed superoxide production and decreased SA beta-gal in hBMSCs
19492297In conclusion, intracellular superoxide accumulation appears to be the main cause of the senescence of hBMSCs, and overexpression of APE1/Ref-1 can rescue cells from the senescence phenotype
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