{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,1]],"date-time":"2026-07-01T18:35:59Z","timestamp":1782930959327,"version":"3.54.5"},"reference-count":64,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2022,10,6]],"date-time":"2022-10-06T00:00:00Z","timestamp":1665014400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"1\u00b73\u00b75 projects for disciplines of excellence\u2013Clinical Research Incubation","award":["2019HXFH022"],"award-info":[{"award-number":["2019HXFH022"]}]},{"name":"Center of Excellence-International Collaboration Initiative","award":["139170052"],"award-info":[{"award-number":["139170052"]}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R01GM123037"],"award-info":[{"award-number":["R01GM123037"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["U01AR069395-01A1"],"award-info":[{"award-number":["U01AR069395-01A1"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R01CA241930"],"award-info":[{"award-number":["R01CA241930"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["NSF 2217515"],"award-info":[{"award-number":["NSF 2217515"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R35GM138184"],"award-info":[{"award-number":["R35GM138184"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,1,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Aging is a complex process that accompanied by molecular and cellular alterations. The identification of tissue-\/cell type-specific biomarkers of aging and elucidation of the detailed biological mechanisms of aging-related genes at the single-cell level can help to understand the heterogeneous aging process and design targeted anti-aging therapeutics. Here, we built AgeAnno (https:\/\/relab.xidian.edu.cn\/AgeAnno\/#\/), a knowledgebase of single cell annotation of aging in human, aiming to provide comprehensive characterizations for aging-related genes across diverse tissue-cell types in human by using single-cell RNA and ATAC sequencing data (scRNA and scATAC). The current version of AgeAnno houses 1 678 610 cells from 28 healthy tissue samples with ages ranging from 0 to 110 years. We collected 5580 aging-related genes from previous resources and performed dynamic functional annotations of the cellular context. For the scRNA data, we performed analyses include differential gene expression, gene variation coefficient, cell communication network, transcription factor (TF) regulatory network, and immune cell proportionc. AgeAnno also provides differential chromatin accessibility analysis, motif\/TF enrichment and footprint analysis, and co-accessibility peak analysis for scATAC data. AgeAnno will be a unique resource to systematically characterize aging-related genes across diverse tissue-cell types in human, and it could facilitate antiaging and aging-related disease research.<\/jats:p>","DOI":"10.1093\/nar\/gkac847","type":"journal-article","created":{"date-parts":[[2022,10,6]],"date-time":"2022-10-06T13:33:02Z","timestamp":1665063182000},"page":"D805-D815","source":"Crossref","is-referenced-by-count":38,"title":["AgeAnno: a knowledgebase of single-cell annotation of aging in human"],"prefix":"10.1093","volume":"51","author":[{"given":"Kexin","family":"Huang","sequence":"first","affiliation":[{"name":"West China Biomedical Big Data Centre, West China Hospital, Sichuan University , Chengdu , Sichuan \u00a0610041, P.R. China"},{"name":"Med-X Center for Informatics, Sichuan University ,Chengdu,Sichuan 610041, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5661-4090","authenticated-orcid":false,"given":"Hoaran","family":"Gong","sequence":"additional","affiliation":[{"name":"West China Biomedical Big Data Centre, West China Hospital, Sichuan University , Chengdu , Sichuan \u00a0610041, P.R. China"},{"name":"Med-X Center for Informatics, Sichuan University ,Chengdu,Sichuan 610041, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jingjing","family":"Guan","sequence":"additional","affiliation":[{"name":"School of Life Science and Technology, Xidian University , Xi\u2019an, Shaanxi\u00a0710071, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lingxiao","family":"Zhang","sequence":"additional","affiliation":[{"name":"School of Life Science and Technology, Xidian University , Xi\u2019an, Shaanxi\u00a0710071, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Changbao","family":"Hu","sequence":"additional","affiliation":[{"name":"School of Life Science and Technology, Xidian University , Xi\u2019an, Shaanxi\u00a0710071, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Weiling","family":"Zhao","sequence":"additional","affiliation":[{"name":"Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston , TX \u00a077030, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6534-2712","authenticated-orcid":false,"given":"Liyu","family":"Huang","sequence":"additional","affiliation":[{"name":"School of Life Science and Technology, Xidian University , Xi\u2019an, Shaanxi\u00a0710071, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wei","family":"Zhang","sequence":"additional","affiliation":[{"name":"West China Biomedical Big Data Centre, West China Hospital, Sichuan University , Chengdu , Sichuan \u00a0610041, P.R. China"},{"name":"Med-X Center for Informatics, Sichuan University ,Chengdu,Sichuan 610041, P.R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8321-6864","authenticated-orcid":false,"given":"Pora","family":"Kim","sequence":"additional","affiliation":[{"name":"Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston , TX \u00a077030, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7191-6495","authenticated-orcid":false,"given":"Xiaobo","family":"Zhou","sequence":"additional","affiliation":[{"name":"Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston , TX \u00a077030, USA"},{"name":"McGovern Medical School, The University of Texas Health Science Center at Houston , Houston , TX 77030,\u00a0 USA"},{"name":"School of Dentistry, The University of Texas Health Science Center at Houston , Houston , TX \u00a077030, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2022,10,6]]},"reference":[{"key":"2023010804211619500_B1","volume-title":"Times, Cells, and Aging","author":"Strihler","year":"2012"},{"key":"2023010804211619500_B2","doi-asserted-by":"crossref","first-page":"R741","DOI":"10.1016\/j.cub.2012.07.024","article-title":"Ageing as a risk factor for disease","volume":"22","author":"Niccoli","year":"2012","journal-title":"Curr. Biol."},{"key":"2023010804211619500_B3","doi-asserted-by":"crossref","first-page":"1194","DOI":"10.1016\/j.cell.2013.05.039","article-title":"The hallmarks of aging","volume":"153","author":"L\u00f3pez-Ot\u00edn","year":"2013","journal-title":"Cell"},{"key":"2023010804211619500_B4","doi-asserted-by":"crossref","first-page":"778674","DOI":"10.3389\/fcvm.2021.778674","article-title":"Longevity factor FOXO3: a key regulator in aging-related vascular diseases","volume":"8","author":"Zhao","year":"2021","journal-title":"Front. Cardiovasc. Med."},{"key":"2023010804211619500_B5","doi-asserted-by":"crossref","first-page":"1016","DOI":"10.1111\/acel.12625","article-title":"FOXO 3 longevity interactome on chromosome 6","volume":"16","author":"Donlon","year":"2017","journal-title":"Aging Cell"},{"key":"2023010804211619500_B6","doi-asserted-by":"crossref","first-page":"1664","DOI":"10.1016\/j.celrep.2013.11.031","article-title":"FOXO3 selectively amplifies enhancer activity to establish target gene regulation","volume":"5","author":"Eijkelenboom","year":"2013","journal-title":"Cell Rep."},{"key":"2023010804211619500_B7","doi-asserted-by":"crossref","first-page":"737","DOI":"10.1016\/j.csbj.2019.06.011","article-title":"FOXO3 on the road to longevity: lessons from SNPs and chromatin hubs","volume":"17","author":"Sanese","year":"2019","journal-title":"Comput. Struct. Biotechnol. J."},{"key":"2023010804211619500_B8","doi-asserted-by":"crossref","first-page":"9705","DOI":"10.1007\/s11357-014-9705-5","article-title":"Resveratrol enhanced FOXO3 phosphorylation via synergetic activation of SIRT1 and PI3K\/Akt signaling to improve the effects of exercise in elderly rat hearts","volume":"36","author":"Lin","year":"2014","journal-title":"Age"},{"key":"2023010804211619500_B9","doi-asserted-by":"crossref","first-page":"11504","DOI":"10.18632\/aging.102551","article-title":"Resveratrol delays postovulatory aging of mouse oocytes through activating mitophagy","volume":"11","author":"Zhou","year":"2019","journal-title":"Aging (Albany NY)"},{"key":"2023010804211619500_B10","doi-asserted-by":"crossref","first-page":"D1083","DOI":"10.1093\/nar\/gkx1042","article-title":"Human ageing genomic resources: new and updated databases","volume":"46","author":"Tacutu","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2023010804211619500_B11","doi-asserted-by":"crossref","first-page":"D825","DOI":"10.1093\/nar\/gkaa894","article-title":"Aging atlas: a multi-omics database for aging biology","volume":"49","author":"Aging Atlas Consortium","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804211619500_B12","doi-asserted-by":"crossref","first-page":"D873","DOI":"10.1093\/nar\/gku843","article-title":"The digital ageing atlas: integrating the diversity of age-related changes into a unified resource","volume":"43","author":"Craig","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2023010804211619500_B13","doi-asserted-by":"crossref","first-page":"e201","DOI":"10.1371\/journal.pgen.0030201","article-title":"AGEMAP: a gene expression database for aging in mice","volume":"3","author":"Zahn","year":"2007","journal-title":"PLoS Genet."},{"key":"2023010804211619500_B14","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1016\/j.febslet.2004.07.006","article-title":"GenAge: a genomic and proteomic network map of human ageing","volume":"571","author":"de\u00a0Magalhaes","year":"2004","journal-title":"FEBS Lett."},{"key":"2023010804211619500_B15","doi-asserted-by":"crossref","first-page":"D1049","DOI":"10.1093\/nar\/gku1179","article-title":"Gene ontology consortium: going forward","volume":"43","author":"Gene\u00a0Ontology\u00a0Consortium","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2023010804211619500_B16","doi-asserted-by":"crossref","first-page":"e13041","DOI":"10.1111\/acel.13041","article-title":"A human tissue-specific transcriptomic analysis reveals a complex relationship between aging, cancer, and cellular senescence","volume":"18","author":"Chatsirisupachai","year":"2019","journal-title":"Aging Cell"},{"key":"2023010804211619500_B17","doi-asserted-by":"crossref","first-page":"411","DOI":"10.1038\/nbt.4096","article-title":"Integrating single-cell transcriptomic data across different conditions, technologies, and species","volume":"36","author":"Butler","year":"2018","journal-title":"Nat. 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Leukocyte Biol."},{"key":"2023010804211619500_B54","doi-asserted-by":"crossref","first-page":"1891","DOI":"10.1084\/jem.184.5.1891","article-title":"Antigen-independent changes in naive CD4 t cells with aging","volume":"184","author":"Linton","year":"1996","journal-title":"J. Exp. Med."},{"key":"2023010804211619500_B55","doi-asserted-by":"crossref","first-page":"107","DOI":"10.3389\/fimmu.2013.00107","article-title":"When aging reaches CD4+ T-cells: phenotypic and functional changes","volume":"4","author":"Moro-Garc\u00eda","year":"2013","journal-title":"Front. Immunol."},{"key":"2023010804211619500_B56","doi-asserted-by":"crossref","first-page":"837","DOI":"10.1084\/jem.20050341","article-title":"T cell aging: naive but not young","volume":"201","author":"Nikolich-\u017dugich","year":"2005","journal-title":"J. Exp. 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