{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,19]],"date-time":"2026-10-19T19:54:25Z","timestamp":1792439665957,"version":"4.5.0"},"reference-count":98,"publisher":"Elsevier BV","issue":"10","license":[{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2023YFA1800401"],"award-info":[{"award-number":["2023YFA1800401"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007185","name":"UCLA","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100007185","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100021171","name":"Basic and Applied Basic Research Foundation of Guangdong Province","doi-asserted-by":"publisher","award":["2022A1515110915"],"award-info":[{"award-number":["2022A1515110915"]}],"id":[{"id":"10.13039\/501100021171","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100021171","name":"Basic and Applied Basic Research Foundation of Guangdong Province","doi-asserted-by":"publisher","award":["2025A1515010939"],"award-info":[{"award-number":["2025A1515010939"]}],"id":[{"id":"10.13039\/501100021171","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100021171","name":"Basic and Applied Basic Research Foundation of Guangdong Province","doi-asserted-by":"publisher","award":["2024A1515010554"],"award-info":[{"award-number":["2024A1515010554"]}],"id":[{"id":"10.13039\/501100021171","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100021171","name":"Basic and Applied Basic Research Foundation of Guangdong Province","doi-asserted-by":"publisher","award":["2023A1515111201"],"award-info":[{"award-number":["2023A1515111201"]}],"id":[{"id":"10.13039\/501100021171","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012600","name":"ShanghaiTech University","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100012600","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["82401271"],"award-info":[{"award-number":["82401271"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32400960"],"award-info":[{"award-number":["32400960"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Molecular Cell"],"published-print":{"date-parts":[[2025,5]]},"DOI":"10.1016\/j.molcel.2025.04.019","type":"journal-article","created":{"date-parts":[[2025,5,5]],"date-time":"2025-05-05T10:33:47Z","timestamp":1746441227000},"page":"1999-2016.e11","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":19,"title":["DNA methyltransferase 1 modulates mitochondrial function through bridging m5C RNA methylation"],"prefix":"10.1016","volume":"85","author":[{"given":"Jing","family":"Wang","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaoqian","family":"Deng","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tianshen","family":"Jian","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shanshan","family":"Yin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Linzhi","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laurent","family":"Vergnes","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhehao","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Huoyuan","family":"Liu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ryan","family":"Lee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sin Yee","family":"Lim","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jae Hoon","family":"Bahn","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xinshu","family":"Xiao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xianmin","family":"Zhu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ganlu","family":"Hu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Karen","family":"Reue","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yizhi","family":"Liu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5235-6410","authenticated-orcid":false,"given":"Guoping","family":"Fan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.molcel.2025.04.019_bib1","doi-asserted-by":"crossref","first-page":"2220","DOI":"10.3390\/ijms21062220","article-title":"DNA Methylation in Neurodegenerative and Cerebrovascular Disorders","volume":"21","author":"Mart\u00ednez-Iglesias","year":"2020","journal-title":"Int. J. Mol. Sci."},{"key":"10.1016\/j.molcel.2025.04.019_bib2","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1038\/s41583-019-0244-z","article-title":"The m(6)A epitranscriptome: transcriptome plasticity in brain development and function","volume":"21","author":"Livneh","year":"2020","journal-title":"Nat. Rev. Neurosci."},{"key":"10.1016\/j.molcel.2025.04.019_bib3","first-page":"58","article-title":"DNA methyl transferase 1: regulatory mechanisms and implications in health and disease","volume":"2","author":"Dhe-Paganon","year":"2011","journal-title":"Int. J. Biochem. Mol. Biol."},{"key":"10.1016\/j.molcel.2025.04.019_bib4","doi-asserted-by":"crossref","first-page":"1768","DOI":"10.4103\/1673-5374.219027","article-title":"Regulation of neuronal survival by DNA methyltransferases","volume":"12","author":"Symmank","year":"2017","journal-title":"Neural Regen. Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib5","doi-asserted-by":"crossref","DOI":"10.1038\/s41598-018-34701-3","article-title":"Dnmt1 has an essential function despite the absence of CpG DNA methylation in the red flour beetle Tribolium castaneum","volume":"8","author":"Schulz","year":"2018","journal-title":"Sci. Rep."},{"key":"10.1016\/j.molcel.2025.04.019_bib6","doi-asserted-by":"crossref","first-page":"371","DOI":"10.1038\/nature12598","article-title":"DNMT1-interacting RNAs block gene-specific DNA methylation","volume":"503","author":"Di Ruscio","year":"2013","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib7","doi-asserted-by":"crossref","first-page":"6240","DOI":"10.1093\/hmg\/ddv343","article-title":"DNMT1-associated long non-coding RNAs regulate global gene expression and DNA methylation in colon cancer","volume":"24","author":"Merry","year":"2015","journal-title":"Hum. Mol. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib8","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-022-35222-4","article-title":"Targeted systematic evolution of an RNA platform neutralizing DNMT1 function and controlling DNA methylation","volume":"14","author":"Esposito","year":"2023","journal-title":"Nat. Commun."},{"key":"10.1016\/j.molcel.2025.04.019_bib9","doi-asserted-by":"crossref","first-page":"346","DOI":"10.1261\/rna.079479.122","article-title":"DNMT1 inhibition by pUG-fold quadruplex RNA","volume":"29","author":"Jansson-Fritzberg","year":"2023","journal-title":"RNA"},{"key":"10.1016\/j.molcel.2025.04.019_bib10","doi-asserted-by":"crossref","first-page":"2205","DOI":"10.1093\/hmg\/dds035","article-title":"Mutations in DNMT1 cause autosomal dominant cerebellar ataxia, deafness and narcolepsy","volume":"21","author":"Winkelmann","year":"2012","journal-title":"Hum. Mol. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib11","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1038\/ng.830","article-title":"Mutations in DNMT1 cause hereditary sensory neuropathy with dementia and hearing loss","volume":"43","author":"Klein","year":"2011","journal-title":"Nat. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib12","doi-asserted-by":"crossref","first-page":"555","DOI":"10.2174\/156720512800617964","article-title":"Alzheimer's disease biomarkers and epigenetic intermediates following exposure to Pb in vitro","volume":"9","author":"Bihaqi","year":"2012","journal-title":"Curr. Alzheimer Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib13","doi-asserted-by":"crossref","first-page":"9031","DOI":"10.1074\/jbc.C110.212589","article-title":"Alpha-synuclein sequesters Dnmt1 from the nucleus: a novel mechanism for epigenetic alterations in Lewy body diseases","volume":"286","author":"Desplats","year":"2011","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.molcel.2025.04.019_bib14","doi-asserted-by":"crossref","DOI":"10.3390\/ijms21155420","article-title":"DNA Methyltransferase 1 (DNMT1) Acts on Neurodegeneration by Modulating Proteostasis-Relevant Intracellular Processes","volume":"21","author":"Bayer","year":"2020","journal-title":"Int. J. Mol. Sci."},{"key":"10.1016\/j.molcel.2025.04.019_bib15","doi-asserted-by":"crossref","first-page":"252","DOI":"10.1016\/j.biopsych.2016.02.021","article-title":"A Comprehensive Analysis of Cell Type-Specific Nuclear RNA From Neurons and Glia of the Brain","volume":"81","author":"Reddy","year":"2017","journal-title":"Biol. Psychiatry"},{"key":"10.1016\/j.molcel.2025.04.019_bib16","doi-asserted-by":"crossref","first-page":"1872","DOI":"10.1016\/j.cell.2018.10.030","article-title":"Acetylation of Cytidine in mRNA Promotes Translation Efficiency","volume":"175","author":"Arango","year":"2018","journal-title":"Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib17","doi-asserted-by":"crossref","first-page":"462","DOI":"10.1016\/j.molcel.2016.04.007","article-title":"Regulation of Poly(A) Tail and Translation during the Somatic Cell Cycle","volume":"62","author":"Park","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib18","doi-asserted-by":"crossref","first-page":"653","DOI":"10.1016\/j.ccell.2017.04.005","article-title":"CHD4 Has Oncogenic Functions in Initiating and Maintaining Epigenetic Suppression of Multiple Tumor Suppressor Genes","volume":"31","author":"Xia","year":"2017","journal-title":"Cancer Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib19","doi-asserted-by":"crossref","first-page":"8355","DOI":"10.1093\/nar\/gkr528","article-title":"The USP7\/Dnmt1 complex stimulates the DNA methylation activity of Dnmt1 and regulates the stability of UHRF1","volume":"39","author":"Felle","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib20","doi-asserted-by":"crossref","first-page":"645","DOI":"10.1042\/BJ20111417","article-title":"ADP-ribose polymers localized on Ctcf-Parp1-Dnmt1 complex prevent methylation of Ctcf target sites","volume":"441","author":"Zampieri","year":"2012","journal-title":"Biochem. J."},{"key":"10.1016\/j.molcel.2025.04.019_bib21","doi-asserted-by":"crossref","first-page":"606","DOI":"10.1038\/cr.2017.55","article-title":"5-methylcytosine promotes mRNA export \u2013 NSUN2 as the methyltransferase and ALYREF as an m(5)C reader","volume":"27","author":"Yang","year":"2017","journal-title":"Cell Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib22","doi-asserted-by":"crossref","first-page":"380","DOI":"10.1038\/s41594-019-0218-x","article-title":"Genome-wide identification of mRNA 5-methylcytosine in mammals","volume":"26","author":"Huang","year":"2019","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.molcel.2025.04.019_bib23","doi-asserted-by":"crossref","first-page":"400","DOI":"10.1038\/s12276-020-0407-z","article-title":"The emerging role of RNA modifications in the regulation of mRNA stability","volume":"52","author":"Boo","year":"2020","journal-title":"Exp. Mol. Med."},{"key":"10.1016\/j.molcel.2025.04.019_bib24","doi-asserted-by":"crossref","first-page":"117","DOI":"10.1038\/nature12730","article-title":"N6-methyladenosine-dependent regulation of messenger RNA stability","volume":"505","author":"Wang","year":"2014","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib25","doi-asserted-by":"crossref","first-page":"1427","DOI":"10.1038\/s41588-022-01173-1","article-title":"RNA m(6)A regulates transcription via DNA demethylation and chromatin accessibility","volume":"54","author":"Deng","year":"2022","journal-title":"Nat. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib26","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1038\/s41586-024-07487-w","article-title":"Accurate structure prediction of biomolecular interactions with AlphaFold 3","volume":"630","author":"Abramson","year":"2024","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib27","doi-asserted-by":"crossref","first-page":"973","DOI":"10.1016\/S0092-8674(00)81203-9","article-title":"Spastic paraplegia and OXPHOS impairment caused by mutations in paraplegin, a nuclear-encoded mitochondrial metalloprotease","volume":"93","author":"Casari","year":"1998","journal-title":"Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib28","doi-asserted-by":"crossref","first-page":"1522","DOI":"10.1093\/hmg\/ddx057","article-title":"DNMT1 mutations found in HSANIE patients affect interaction with UHRF1 and neuronal differentiation","volume":"26","author":"Smets","year":"2017","journal-title":"Hum. Mol. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib29","doi-asserted-by":"crossref","DOI":"10.1126\/sciadv.abe8511","article-title":"Mutation-induced DNMT1 cleavage drives neurodegenerative disease","volume":"7","author":"Wang","year":"2021","journal-title":"Sci. Adv."},{"key":"10.1016\/j.molcel.2025.04.019_bib30","doi-asserted-by":"crossref","first-page":"5151","DOI":"10.1021\/acs.biochem.9b00749","article-title":"Disease-Associated Mutations G589A and V590F Relieve Replication Focus Targeting Sequence-Mediated Autoinhibition of DNA Methyltransferase 1","volume":"58","author":"Dolen","year":"2019","journal-title":"Biochemistry"},{"key":"10.1016\/j.molcel.2025.04.019_bib31","doi-asserted-by":"crossref","first-page":"1864","DOI":"10.1093\/hmg\/ddaa014","article-title":"DNMT1 mutations leading to neurodegeneration paradoxically reflect on mitochondrial metabolism","volume":"29","author":"Maresca","year":"2020","journal-title":"Hum. Mol. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib32","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1016\/j.stem.2016.03.013","article-title":"Activation of Endogenous Retroviruses in Dnmt1(-\/-) ESCs Involves Disruption of SETDB1-Mediated Repression by NP95 Binding to Hemimethylated DNA","volume":"19","author":"Sharif","year":"2016","journal-title":"Cell Stem Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib33","doi-asserted-by":"crossref","first-page":"21082","DOI":"10.1074\/jbc.M110.125674","article-title":"Repression of retrotransposal elements in mouse embryonic stem cells is primarily mediated by a DNA methylation-independent mechanism","volume":"285","author":"Hutnick","year":"2010","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.molcel.2025.04.019_bib34","doi-asserted-by":"crossref","first-page":"788","DOI":"10.1523\/JNEUROSCI.21-03-00788.2001","article-title":"DNA hypomethylation perturbs the function and survival of CNS neurons in postnatal animals","volume":"21","author":"Fan","year":"2001","journal-title":"J. Neurosci."},{"key":"10.1016\/j.molcel.2025.04.019_bib35","doi-asserted-by":"crossref","first-page":"2875","DOI":"10.1093\/hmg\/ddp222","article-title":"DNA hypomethylation restricted to the murine forebrain induces cortical degeneration and impairs postnatal neuronal maturation","volume":"18","author":"Hutnick","year":"2009","journal-title":"Hum. Mol. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib36","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1038\/nature11082","article-title":"Topological domains in mammalian genomes identified by analysis of chromatin interactions","volume":"485","author":"Dixon","year":"2012","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib37","doi-asserted-by":"crossref","first-page":"512","DOI":"10.1016\/j.neuron.2019.08.002","article-title":"Nucleome Dynamics during Retinal Development","volume":"104","author":"Norrie","year":"2019","journal-title":"Neuron"},{"key":"10.1016\/j.molcel.2025.04.019_bib38","doi-asserted-by":"crossref","first-page":"809","DOI":"10.1128\/MCB.00955-15","article-title":"Chromatin and RNA Maps Reveal Regulatory Long Noncoding RNAs in Mouse","volume":"36","author":"Bogu","year":"2015","journal-title":"Mol. Cell. Biol."},{"key":"10.1016\/j.molcel.2025.04.019_bib39","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1016\/j.neuron.2017.04.022","article-title":"The Dynamic Epigenetic Landscape of the Retina During Development, Reprogramming, and Tumorigenesis","volume":"94","author":"Aldiri","year":"2017","journal-title":"Neuron"},{"key":"10.1016\/j.molcel.2025.04.019_bib40","doi-asserted-by":"crossref","first-page":"955","DOI":"10.1016\/j.molcel.2017.11.013","article-title":"hnRNPK Recruits PCGF3\/5-PRC1 to the Xist RNA B-Repeat to Establish Polycomb-Mediated Chromosomal Silencing","volume":"68","author":"Pintacuda","year":"2017","journal-title":"Mol. Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib41","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/j.molcel.2015.08.009","article-title":"SPG7 Is an Essential and Conserved Component of the Mitochondrial Permeability Transition Pore","volume":"60","author":"Shanmughapriya","year":"2015","journal-title":"Mol. Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib42","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1042\/bse0470053","article-title":"Mitochondrial proton and electron leaks","volume":"47","author":"Jastroch","year":"2010","journal-title":"Essays Biochem."},{"key":"10.1016\/j.molcel.2025.04.019_bib43","doi-asserted-by":"crossref","first-page":"40749","DOI":"10.1074\/jbc.M505593200","article-title":"Procainamide is a specific inhibitor of DNA methyltransferase 1","volume":"280","author":"Lee","year":"2005","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.molcel.2025.04.019_bib44","doi-asserted-by":"crossref","unstructured":"Yang, Y., Xu, C., Liu, X., Xu, C., Zhang, Y., Shen, L., Vihinen, M., and Shen, B. (2018). NDDVD: an integrated and manually curated Neurodegenerative Diseases Variation Database. Database. https:\/\/doi.org\/10.1093\/database\/bay018.","DOI":"10.1093\/database\/bay018"},{"key":"10.1016\/j.molcel.2025.04.019_bib45","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1007\/s11011-013-9468-1","article-title":"Krupple-like factors in the central nervous system: novel mediators in stroke","volume":"30","author":"Yin","year":"2015","journal-title":"Metab. Brain Dis."},{"key":"10.1016\/j.molcel.2025.04.019_bib46","doi-asserted-by":"crossref","first-page":"2094","DOI":"10.1021\/acschemneuro.8b00516","article-title":"SQSTM1\/p62: A Potential Target for Neurodegenerative Disease","volume":"10","author":"Ma","year":"2019","journal-title":"ACS Chem. Neurosci."},{"key":"10.1016\/j.molcel.2025.04.019_bib47","article-title":"Data services and software for identifying genes and mutations causing retinal degeneration. Ophthalmol","volume":"39","author":"Daiger","year":"1998","journal-title":"Vis. Sci."},{"key":"10.1016\/j.molcel.2025.04.019_bib48","doi-asserted-by":"crossref","first-page":"423","DOI":"10.1016\/j.preteyeres.2009.07.001","article-title":"Cellular signaling and factors involved in Muller cell gliosis: neuroprotective and detrimental effects","volume":"28","author":"Bringmann","year":"2009","journal-title":"Prog. Retin. Eye Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib49","doi-asserted-by":"crossref","first-page":"674","DOI":"10.1016\/j.molcel.2025.01.030","article-title":"Tuning up gene transcription via direct crosstalk of DNA and RNA methylation","volume":"85","author":"Deng","year":"2025","journal-title":"Mol. Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib50","doi-asserted-by":"crossref","first-page":"998","DOI":"10.1016\/j.cell.2024.12.009","article-title":"Fine-tuning of gene expression through the Mettl3-Mettl14-Dnmt1 axis controls ESC differentiation","volume":"188","author":"Quarto","year":"2025","journal-title":"Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib51","doi-asserted-by":"crossref","first-page":"870","DOI":"10.1038\/s41588-020-0677-3","article-title":"N(6)-Methyladenosine co-transcriptionally directs the demethylation of histone H3K9me2","volume":"52","author":"Li","year":"2020","journal-title":"Nat. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib52","doi-asserted-by":"crossref","DOI":"10.1186\/s13148-016-0254-x","article-title":"Identification of a methylation profile for DNMT1-associated autosomal dominant cerebellar ataxia, deafness, and narcolepsy","volume":"8","author":"Kernohan","year":"2016","journal-title":"Clin. Epigenet."},{"key":"10.1016\/j.molcel.2025.04.019_bib53","doi-asserted-by":"crossref","first-page":"521","DOI":"10.1002\/jcb.22071","article-title":"Dimerization of DNA methyltransferase 1 is mediated by its regulatory domain","volume":"106","author":"Fellinger","year":"2009","journal-title":"J. Cell. Biochem."},{"key":"10.1016\/j.molcel.2025.04.019_bib54","doi-asserted-by":"crossref","first-page":"184","DOI":"10.1038\/nbt.3437","article-title":"Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9","volume":"34","author":"Doench","year":"2016","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.molcel.2025.04.019_bib55","doi-asserted-by":"crossref","DOI":"10.3791\/58464","article-title":"Direct Lineage Reprogramming of Adult Mouse Fibroblast to Erythroid Progenitors","author":"Ilsley","year":"2018","journal-title":"J. Vis. Exp."},{"key":"10.1016\/j.molcel.2025.04.019_bib56","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pbio.0030283","article-title":"Niche-Independent Symmetrical Self-Renewal of a Mammalian Tissue Stem Cell","volume":"3","author":"Conti","year":"2005","journal-title":"PLoS Biol."},{"key":"10.1016\/j.molcel.2025.04.019_bib57","doi-asserted-by":"crossref","DOI":"10.3390\/cells11193146","article-title":"Global Transcriptional and Epigenetic Reconfiguration during Chemical Reprogramming of Human Retinal Pigment Epithelial Cells into Photoreceptor-like Cells","volume":"11","author":"Deng","year":"2022","journal-title":"Cells"},{"key":"10.1016\/j.molcel.2025.04.019_bib58","doi-asserted-by":"crossref","DOI":"10.3791\/1787","article-title":"A simple composite phenotype scoring system for evaluating mouse models of cerebellar ataxia","author":"Guyenet","year":"2010","journal-title":"J. Vis. Exp."},{"key":"10.1016\/j.molcel.2025.04.019_bib59","doi-asserted-by":"crossref","first-page":"7385","DOI":"10.1523\/JNEUROSCI.17-19-07385.1997","article-title":"Purkinje cell expression of a mutant allele of SCA1 in transgenic mice leads to disparate effects on motor behaviors, followed by a progressive cerebellar dysfunction and histological alterations","volume":"17","author":"Clark","year":"1997","journal-title":"J. Neurosci."},{"key":"10.1016\/j.molcel.2025.04.019_bib60","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1038\/nm.3514","article-title":"Neuronal targets for reducing mutant huntingtin expression to ameliorate disease in a mouse model of Huntington's disease","volume":"20","author":"Wang","year":"2014","journal-title":"Nat. Med."},{"key":"10.1016\/j.molcel.2025.04.019_bib61","doi-asserted-by":"crossref","first-page":"18439","DOI":"10.1073\/pnas.2009316117","article-title":"Direct readout of heterochromatic H3K9me3 regulates DNMT1-mediated maintenance DNA methylation","volume":"117","author":"Ren","year":"2020","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.molcel.2025.04.019_bib62","doi-asserted-by":"crossref","first-page":"709","DOI":"10.1126\/science.1214453","article-title":"Structure-based mechanistic insights into DNMT1-mediated maintenance DNA methylation","volume":"335","author":"Song","year":"2012","journal-title":"Science"},{"key":"10.1016\/j.molcel.2025.04.019_bib63","doi-asserted-by":"crossref","first-page":"1605","DOI":"10.1002\/jcc.20084","article-title":"UCSF Chimera--a visualization system for exploratory research and analysis","volume":"25","author":"Pettersen","year":"2004","journal-title":"J. Comput. Chem."},{"key":"10.1016\/j.molcel.2025.04.019_bib64","doi-asserted-by":"crossref","first-page":"387","DOI":"10.1038\/nature25477","article-title":"Structural basis for DNMT3A-mediated de novo DNA methylation","volume":"554","author":"Zhang","year":"2018","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib65","doi-asserted-by":"crossref","DOI":"10.15252\/embj.2019104073","article-title":"A novel approach to measure mitochondrial respiration in frozen biological samples","volume":"39","author":"Acin-Perez","year":"2020","journal-title":"EMBO J."},{"key":"10.1016\/j.molcel.2025.04.019_bib66","doi-asserted-by":"crossref","first-page":"380","DOI":"10.1074\/jbc.M110.184754","article-title":"Heart-type fatty acid-binding protein is essential for efficient brown adipose tissue fatty acid oxidation and cold tolerance","volume":"286","author":"Vergnes","year":"2011","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.molcel.2025.04.019_bib67","doi-asserted-by":"crossref","first-page":"508","DOI":"10.1038\/nmeth.3810","article-title":"Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)","volume":"13","author":"Van Nostrand","year":"2016","journal-title":"Nat. Methods"},{"key":"10.1016\/j.molcel.2025.04.019_bib68","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1007\/978-1-0716-1681-9_9","article-title":"Genome-Wide Analysis of RNA-Protein Interactions in Plasmodium falciparum Using eCLIP-Seq","volume":"2369","author":"Hollin","year":"2021","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.molcel.2025.04.019_bib69","doi-asserted-by":"crossref","first-page":"1111","DOI":"10.1016\/j.neuron.2019.04.010","article-title":"Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification","volume":"102","author":"Clark","year":"2019","journal-title":"Neuron"},{"key":"10.1016\/j.molcel.2025.04.019_bib70","doi-asserted-by":"crossref","first-page":"218","DOI":"10.1126\/science.1168978","article-title":"Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling","volume":"324","author":"Ingolia","year":"2009","journal-title":"Science"},{"key":"10.1016\/j.molcel.2025.04.019_bib71","doi-asserted-by":"crossref","first-page":"1198","DOI":"10.1038\/nmeth.4435","article-title":"Thiol-linked alkylation of RNA to assess expression dynamics","volume":"14","author":"Herzog","year":"2017","journal-title":"Nat. Methods"},{"key":"10.1016\/j.molcel.2025.04.019_bib72","doi-asserted-by":"crossref","first-page":"3921","DOI":"10.1093\/cercor\/bhaa009","article-title":"DNA Methylation-Mediated Modulation of Endocytosis as Potential Mechanism for Synaptic Function Regulation in Murine Inhibitory Cortical Interneurons","volume":"30","author":"Pensold","year":"2020","journal-title":"Cereb. Cortex"},{"key":"10.1016\/j.molcel.2025.04.019_bib73","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-020-16919-w","article-title":"Genome-wide analysis in the mouse embryo reveals the importance of DNA methylation for transcription integrity","volume":"11","author":"Dahlet","year":"2020","journal-title":"Nat. Commun."},{"key":"10.1016\/j.molcel.2025.04.019_bib74","doi-asserted-by":"crossref","first-page":"6213","DOI":"10.1093\/nar\/gkab437","article-title":"CD44 alternative splicing senses intragenic DNA methylation in tumors via direct and indirect mechanisms","volume":"49","author":"Batsch\u00e9","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib75","doi-asserted-by":"crossref","first-page":"711","DOI":"10.1038\/s41586-020-2077-3","article-title":"A large-scale binding and functional map of human RNA-binding proteins","volume":"583","author":"Van Nostrand","year":"2020","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib76","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","article-title":"STAR: ultrafast universal RNA-seq aligner","volume":"29","author":"Dobin","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.molcel.2025.04.019_bib77","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The Sequence Alignment\/Map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"10.1016\/j.molcel.2025.04.019_bib78","doi-asserted-by":"crossref","first-page":"782","DOI":"10.1093\/bioinformatics\/btv647","article-title":"meRanTK: methylated RNA analysis ToolKit","volume":"32","author":"Rieder","year":"2016","journal-title":"Bioinformatics"},{"key":"10.1016\/j.molcel.2025.04.019_bib79","doi-asserted-by":"crossref","DOI":"10.1186\/1471-2105-15-215","article-title":"Using beta-binomial regression for high-precision differential methylation analysis in multifactor whole-genome bisulfite sequencing experiments","volume":"15","author":"Dolzhenko","year":"2014","journal-title":"BMC Bioinformatics"},{"key":"10.1016\/j.molcel.2025.04.019_bib80","doi-asserted-by":"crossref","first-page":"1571","DOI":"10.1093\/bioinformatics\/btr167","article-title":"Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications","volume":"27","author":"Krueger","year":"2011","journal-title":"Bioinformatics"},{"key":"10.1016\/j.molcel.2025.04.019_bib81","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.3317","article-title":"HISAT: a fast spliced aligner with low memory requirements","volume":"12","author":"Kim","year":"2015","journal-title":"Nat. Methods"},{"key":"10.1016\/j.molcel.2025.04.019_bib82","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkt214","article-title":"The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote","volume":"41","author":"Liao","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib83","doi-asserted-by":"crossref","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"Love","year":"2014","journal-title":"Genome Biol."},{"key":"10.1016\/j.molcel.2025.04.019_bib84","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","article-title":"Fast gapped-read alignment with Bowtie 2","volume":"9","author":"Langmead","year":"2012","journal-title":"Nat. Methods"},{"key":"10.1016\/j.molcel.2025.04.019_bib85","doi-asserted-by":"crossref","DOI":"10.1186\/s12859-019-2849-7","article-title":"Quantification of experimentally induced nucleotide conversions in high-throughput sequencing datasets","volume":"20","author":"Neumann","year":"2019","journal-title":"BMC Bioinformatics"},{"key":"10.1016\/j.molcel.2025.04.019_bib86","doi-asserted-by":"crossref","first-page":"1888","DOI":"10.1016\/j.cell.2019.05.031","article-title":"Comprehensive Integration of Single-Cell Data","volume":"177","author":"Stuart","year":"2019","journal-title":"Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib87","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-017-02525-w","article-title":"High-resolution TADs reveal DNA sequences underlying genome organization in flies","volume":"9","author":"Ram\u00edrez","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.molcel.2025.04.019_bib88","doi-asserted-by":"crossref","first-page":"W11","DOI":"10.1093\/nar\/gky504","article-title":"Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization","volume":"46","author":"Wolff","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib89","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1038\/nmeth.1906","article-title":"ChromHMM: automating chromatin-state discovery and characterization","volume":"9","author":"Ernst","year":"2012","journal-title":"Nat. Methods"},{"key":"10.1016\/j.molcel.2025.04.019_bib90","doi-asserted-by":"crossref","first-page":"116","DOI":"10.1038\/nature11243","article-title":"A map of the cis-regulatory sequences in the mouse genome","volume":"488","author":"Shen","year":"2012","journal-title":"Nature"},{"key":"10.1016\/j.molcel.2025.04.019_bib91","doi-asserted-by":"crossref","first-page":"576","DOI":"10.1016\/j.molcel.2010.05.004","article-title":"Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities","volume":"38","author":"Heinz","year":"2010","journal-title":"Mol. Cell"},{"key":"10.1016\/j.molcel.2025.04.019_bib92","doi-asserted-by":"crossref","first-page":"1188","DOI":"10.1101\/gr.849004","article-title":"WebLogo: a sequence logo generator","volume":"14","author":"Crooks","year":"2004","journal-title":"Genome Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib93","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1038\/s41467-021-21194-4","article-title":"RNA secondary structure prediction using deep learning with thermodynamic integration","volume":"12","author":"Sato","year":"2021","journal-title":"Nat. Commun."},{"key":"10.1016\/j.molcel.2025.04.019_bib94","doi-asserted-by":"crossref","first-page":"D184","DOI":"10.1093\/nar\/gkv1309","article-title":"GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes","volume":"44","author":"Chan","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib95","doi-asserted-by":"crossref","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","article-title":"Gapped BLAST and PSI-BLAST: a new generation of protein database search programs","volume":"25","author":"Altschul","year":"1997","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib96","doi-asserted-by":"crossref","first-page":"D419","DOI":"10.1093\/nar\/gky1038","article-title":"PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools","volume":"47","author":"Mi","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.molcel.2025.04.019_bib97","doi-asserted-by":"crossref","first-page":"267","DOI":"10.1038\/ng1180","article-title":"PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes","volume":"34","author":"Mootha","year":"2003","journal-title":"Nat. Genet."},{"key":"10.1016\/j.molcel.2025.04.019_bib98","doi-asserted-by":"crossref","first-page":"15545","DOI":"10.1073\/pnas.0506580102","article-title":"Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles","volume":"102","author":"Subramanian","year":"2005","journal-title":"Proc. Natl. Acad. Sci. USA"}],"container-title":["Molecular Cell"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1097276525003612?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1097276525003612?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,5]],"date-time":"2025-11-05T17:51:48Z","timestamp":1762365108000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1097276525003612"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,5]]},"references-count":98,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2025,5]]}},"alternative-id":["S1097276525003612"],"URL":"https:\/\/doi.org\/10.1016\/j.molcel.2025.04.019","relation":{},"ISSN":["1097-2765"],"issn-type":[{"value":"1097-2765","type":"print"}],"subject":[],"published":{"date-parts":[[2025,5]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"DNA methyltransferase 1 modulates mitochondrial function through bridging m5C RNA methylation","name":"articletitle","label":"Article Title"},{"value":"Molecular Cell","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.molcel.2025.04.019","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 Elsevier Inc. All rights are reserved, including those for text and data mining, AI training, and similar technologies.","name":"copyright","label":"Copyright"}]}}