2024
Human HDAC6 senses valine abundancy to regulate DNA damage
Jin J, Meng T, Yu Y, Wu S, Jiao C, Song S, Li Y, Zhang Y, Zhao Y, Li X, Wang Z, Liu Y, Huang R, Qin J, Chen Y, Cao H, Tan X, Ge X, Jiang C, Xue J, Yuan J, Wu D, Wu W, Jiang C, Wang P. Human HDAC6 senses valine abundancy to regulate DNA damage. Nature 2024, 637: 215-223. PMID: 39567688, DOI: 10.1038/s41586-024-08248-5.Peer-Reviewed Original ResearchConceptsHuman histone deacetylase 6Active DNA demethylationDNA demethylationValine deprivationDNA damageTen-eleven translocationRegulating DNA damageHistone deacetylase 6Repeat domainTherapeutic efficacy of PARP inhibitorsBind valineEfficacy of PARP inhibitorsCellular functionsPatient-derived xenograft modelsCytoplasmic shuttlingInduce DNA damageBranched amino acidsProtein synthesisAmino acidsIntracellular levelsPARP inhibitorsDNALevels of valineTumor growthTherapeutic efficacy
2016
Oncogenic EGFR Represses the TET1 DNA Demethylase to Induce Silencing of Tumor Suppressors in Cancer Cells
Forloni M, Gupta R, Nagarajan A, Sun LS, Dong Y, Pirazzoli V, Toki M, Wurtz A, Melnick MA, Kobayashi S, Homer RJ, Rimm DL, Gettinger SJ, Politi K, Dogra SK, Wajapeyee N. Oncogenic EGFR Represses the TET1 DNA Demethylase to Induce Silencing of Tumor Suppressors in Cancer Cells. Cell Reports 2016, 16: 457-471. PMID: 27346347, PMCID: PMC4945411, DOI: 10.1016/j.celrep.2016.05.087.Peer-Reviewed Original ResearchMeSH KeywordsAdenocarcinomaAdenocarcinoma of LungAntineoplastic AgentsBrain NeoplasmsCCAAT-Enhancer-Binding ProteinsCell Line, TumorCpG IslandsDNA MethylationDrug Screening Assays, AntitumorErbB ReceptorsGene Expression Regulation, NeoplasticGene SilencingGlioblastomaHumansLung NeoplasmsMAP Kinase Signaling SystemMixed Function OxygenasesMutationOncogenesProtein Kinase InhibitorsProto-Oncogene ProteinsTranscription, GeneticTumor Suppressor ProteinsUp-RegulationConceptsOncogenic epidermal growth factor receptorMethylation-mediated transcriptional silencingEpidermal growth factor receptorTumor suppressorTranscriptional silencingActive DNA demethylationCancer cellsFamily member 1TET1 knockdownDNA demethylaseDNA demethylationTranscription factorsGrowth factor receptorEctopic expressionCytoplasmic localizationGlioblastoma tumor growthLung cancer cellsTET1 expressionFunctional roleSuppressorFactor receptorMember 1TET1SilencingLung cancer samples
2015
Tet3 regulates synaptic transmission and homeostatic plasticity via DNA oxidation and repair
Yu H, Su Y, Shin J, Zhong C, Guo J, Weng Y, Gao F, Geschwind D, Coppola G, Ming G, Song H. Tet3 regulates synaptic transmission and homeostatic plasticity via DNA oxidation and repair. Nature Neuroscience 2015, 18: 836-843. PMID: 25915473, PMCID: PMC4446239, DOI: 10.1038/nn.4008.Peer-Reviewed Original Research
2014
DNA Demethylation By Activation-Induced Cytidine Deaminase in B Cell Lymphoma
Xi Y, Shivarov V, Yaari G, Kleinstein S, Strout M. DNA Demethylation By Activation-Induced Cytidine Deaminase in B Cell Lymphoma. Blood 2014, 124: 3549. DOI: 10.1182/blood.v124.21.3549.3549.Peer-Reviewed Original ResearchActivation-induced cytidine deaminaseDNA demethylationGene expressionDNA methylationMethylation sitesBisulfite sequencingBL2 cellsHumanHT-12 v4 Expression BeadChipPrimary transcriptional start sitesC-terminal deletion mutantsCpG sitesGenome-wide methylation profilingActive DNA demethylationMethylation statusRNA polymerase IISomatic cell differentiationCytidine deaminaseSingle-nucleotide resolutionTranscriptional start siteSubset of genesDNA repair pathwaysList of genesTarget gene expressionEarly cell developmentV4 Expression BeadChipGenome-wide antagonism between 5-hydroxymethylcytosine and DNA methylation in the adult mouse brain
Guo J, Szulwach K, Su Y, Li Y, Yao B, Xu Z, Shin J, Xie B, Gao Y, Ming G, Jin P, Song H. Genome-wide antagonism between 5-hydroxymethylcytosine and DNA methylation in the adult mouse brain. Frontiers In Biology 2014, 9: 66-74. PMID: 25568643, PMCID: PMC4284063, DOI: 10.1007/s11515-014-1295-1.Peer-Reviewed Original ResearchActive DNA demethylationDNA methylomeDNA demethylationDNA methylationGenome-wide distribution of 5hmCGenome-wide distributionGenome-wide comparisonDistribution of 5hmCGranule neurons in vivoGene expression profilesGene bodiesCytosine modificationsNeuronal genomeMammalian nervous systemDNA modificationsGene expressionEmbryonic stem cellsDNAAdult mouse brainFunctional disparityGenesMethylomeCell typesIntegrated analysisGranule neurons
2013
Chapter 3 Active DNA Demethylation and 5-Hydroxymethylcytosine
Guo J, Ming G, Song H. Chapter 3 Active DNA Demethylation and 5-Hydroxymethylcytosine. 2013, 69-83. DOI: 10.1016/b978-0-12-391494-1.00003-3.Peer-Reviewed Original ResearchActive DNA demethylationDNA demethylationRegulation of gene expression programsCytosine C5-methylationCharacterized epigenetic modificationDNA base 5-hydroxymethylcytosineGene expression programsEukaryotic cellsDNA methylationEpigenetic modificationsMammalian nervous systemDynamic regulationMolecular mechanismsExpression programsC5-methylationDemethylationDNANervous systemPathological conditionsCytosine
2011
Emerging roles of TET proteins and 5-hydroxymethylcytosines in active DNA demethylation and beyond
Guo J, Su Y, Zhong C, Ming G, Song H. Emerging roles of TET proteins and 5-hydroxymethylcytosines in active DNA demethylation and beyond. Cell Cycle 2011, 10: 2662-2668. PMID: 21811096, PMCID: PMC3219536, DOI: 10.4161/cc.10.16.17093.Peer-Reviewed Original ResearchHydroxylation of 5-Methylcytosine by TET1 Promotes Active DNA Demethylation in the Adult Brain
Guo J, Su Y, Zhong C, Ming G, Song H. Hydroxylation of 5-Methylcytosine by TET1 Promotes Active DNA Demethylation in the Adult Brain. Cell 2011, 145: 423-434. PMID: 21496894, PMCID: PMC3088758, DOI: 10.1016/j.cell.2011.03.022.Peer-Reviewed Original ResearchConceptsActive DNA demethylationDNA demethylationMammalian cellsHydroxylation of 5-methylcytosineMammalian genomic DNABase excision repair pathwayPromoter DNA demethylationHuman DNA glycosylasesExcision repair pathwayAdult mouse brain in vivoCytosine methylationEpigenetic marksTranscriptional regulationGenomic DNADNA glycosylaseRepair pathwaysCovalent modificationGene expressionMolecular mechanismsActivity-inducedCytidine deaminaseEnzymatic removalDemethylationTET1Mouse brain in vivo
2009
DNA excision repair proteins and Gadd45 as molecular players for active DNA demethylation
Ma D, Guo J, Ming G, Song H. DNA excision repair proteins and Gadd45 as molecular players for active DNA demethylation. Cell Cycle 2009, 8: 1526-1531. PMID: 19377292, PMCID: PMC2738863, DOI: 10.4161/cc.8.10.8500.Peer-Reviewed Original ResearchConceptsActive DNA demethylationDNA demethylationProcess of DNA demethylationMolecular playersProcess of DNA methylationHeritable gene silencingDNA cytosine methylationClass of methyltransferasesDNA demethylation mechanismTransgenerational epigenetic inheritanceDNA excision repair proteinNucleotide-excision repairExcision repair proteinsHeterochromatin formationCytosine methylationExcision repair enzymesEpigenetic inheritanceEvolutionary implicationsDNA methylationGene silencingModification signalsEnzymatic machineryDemethylation mechanismRepair enzymesRepair proteins
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