2025
Nutrient-driven histone code determines exhausted CD8+ T cell fates
Ma S, Dahabieh M, Mann T, Zhao S, McDonald B, Song W, Chung H, Farsakoglu Y, Garcia-Rivera L, Hoffmann F, Xu S, Du V, Chen D, Furgiuele J, LaPorta M, Jacobs E, DeCamp L, Oswald B, Sheldon R, Ellis A, Liu L, He P, Wang Y, Jang C, Jones R, Kaech S. Nutrient-driven histone code determines exhausted CD8+ T cell fates. Science 2025, 387: eadj3020. PMID: 39666821, PMCID: PMC11881194, DOI: 10.1126/science.adj3020.Peer-Reviewed Original ResearchATP-citrate lyaseAcetyl-CoA synthetase 2Histone codeCD8<sup>+</sup> T cell differentiationTumor-specific T-cell responsesACLY inhibitionHistone acetylationCD8+ T cell fateExhausted T cellsT-cell therapyChronic viral infectionsT cell responsesT cell differentiationT cell fateT cell genesTex cellsT cellsEpigenetic modificationsEpigenetic remodelingViral infectionCitrate metabolismNutrient metabolismHistoneAcetylationDifferentiation
2022
Histone H3 proline 16 hydroxylation regulates mammalian gene expression
Liu X, Wang J, Boyer J, Gong W, Zhao S, Xie L, Wu Q, Zhang C, Jain K, Guo Y, Rodriguez J, Li M, Uryu H, Liao C, Hu L, Zhou J, Shi X, Tsai Y, Yan Q, Luo W, Chen X, Strahl B, von Kriegsheim A, Zhang Q, Wang G, Baldwin A, Zhang Q. Histone H3 proline 16 hydroxylation regulates mammalian gene expression. Nature Genetics 2022, 54: 1721-1735. PMID: 36347944, PMCID: PMC9674084, DOI: 10.1038/s41588-022-01212-x.Peer-Reviewed Original ResearchConceptsPost-translational modificationsHistone post-translational modificationsMammalian gene expressionGene expressionHistone H3Mammalian cellsDNA-templated processesTranscriptome-wide analysisTarget gene expressionHydroxylation of prolineWnt/β-cateninChromatin recruitmentHistone codeTarget genesRegulatory marksLysine residuesDirect bindingTriple-negative breast cancerΒ-cateninResidues 16H3ExpressionH3K4me3TrimethylationGenome
2011
A High-Resolution Whole-Genome Map of Key Chromatin Modifications in the Adult Drosophila melanogaster
Yin H, Sweeney S, Raha D, Snyder M, Lin H. A High-Resolution Whole-Genome Map of Key Chromatin Modifications in the Adult Drosophila melanogaster. PLOS Genetics 2011, 7: e1002380. PMID: 22194694, PMCID: PMC3240582, DOI: 10.1371/journal.pgen.1002380.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsChromatin Assembly and DisassemblyChromatin ImmunoprecipitationChromosomal Proteins, Non-HistoneChromosome MappingDrosophila melanogasterDrosophila ProteinsEpigenesis, GeneticEuchromatinGenome, InsectHeterochromatinHigh-Throughput Nucleotide SequencingHistonesRepetitive Sequences, Nucleic AcidRetroelementsRNA Polymerase IITranscription Initiation SiteConceptsHeterochromatin protein 1aChromatin modificationsStart siteChromatin modification landscapeKey chromatin modificationKey histone marksCell typesDrosophila cell typesRNA polymerase IIAdult Drosophila melanogasterTranscriptional start siteDiverse cell typesTranscription start siteFunctionality of genesHigh-Resolution WholeEuchromatic marksHistone codeHistone marksModification landscapeDrosophila melanogasterPolymerase IIGenome mapChromatin immunoprecipitationRegulatory sequencesSplicing junctions
2009
DNMT1 and DNMT3B Modulate Distinct Polycomb-Mediated Histone Modifications in Colon Cancer
Jin B, Yao B, Li J, Fields C, Delmas A, Liu C, Robertson K. DNMT1 and DNMT3B Modulate Distinct Polycomb-Mediated Histone Modifications in Colon Cancer. Cancer Research 2009, 69: 7412-7421. PMID: 19723660, PMCID: PMC2745494, DOI: 10.1158/0008-5472.can-09-0116.Peer-Reviewed Original ResearchConceptsDNA methyltransferasesMethylation patternsPolycomb group targetsPRC1/PRC2DNA methylation patternsBisulfite genomic sequencingPRC1 functionRepression complexHistone codeHistone modificationsChromatin immunoprecipitationEpigenetic silencingPanel of genesEpigenetic modifiersReverse transcription-PCRPRC2DNMT3BNovel linkGenomic sequencingGenesDNMT1Colorectal cancer cell linesCell growthCancer cell linesPRC1
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