ArticleGeroScience2024
ATAC-clock: An aging clock based on chromatin accessibility.
Article in GeroScience, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
34 citing papers in PubMed, 44 citations in OpenAlex.
- cGAS-deficient mice display premature aging associated with derepression of LINE1 elements and inflammation.Nature aging · 2026Article
- iDCF: Interpretable deconvolution of cell fractions via biologically-informed deep learning using scRNA-seq data.PLoS computational biology · 2026Article
- Enhancing the performance and interpretability of epigenetic clocks.Nucleic acids research · 2026Article
- Single-cell catalogue of immune cells from Japanese individuals.Communications biology · 2026Article
- The Evolving Landscape of Clinical Aging Clocks: From Epigenetic to Multi-Omics Integration.Aging cell · 2026Review
- Ryder: Epigenome normalization using a two-tier model and internal reference regions.bioRxiv : the preprint server for biology · 2026Article
- Histone modification clocks for robust cross-species biological age prediction and elucidating senescence regulation.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Single-cell transcriptomics reveal intrinsic and systemic T cell aging in COVID-19 and HIV.Aging · 2026Article
- omnideconv: a unifying framework for using and benchmarking single-cell-informed deconvolution of bulk RNA-seq data.Genome biology · 2026Article
- Transcriptomic differences in immune- and stress-related pathways associated with artificial rearing in the endangered hog deer (Axis porcinus).BMC genomics · 2026Article
- Gut microbiota-epigenetic interactions in systemic aging: mechanistic drivers for endocrine and reproductive network remodeling and therapeutic modulation.Frontiers in aging · 2026Review
- Cardiac and systemic biological age capture complementary aging signals associated with cardiovascular disease.Frontiers in cardiovascular medicine · 2026Article
- From molecular damage to regulatory constraint: epigenetic and metabolic limits of cellular plasticity in aging.Frontiers in aging · 2026Review
- Tissue-specific aging-a new paradigm based on transcriptional insights from select model systems and humans.Frontiers in genetics · 2026Review
- Lymphoma accelerates T cell and tissue aging.Cancer cell · 2025Article
- Unlocking longevity through the comparative biology of aging.Nature aging · 2025Review
- A single-cell transposable element atlas of human cell identity.Cell reports methods · 2025Article
- Primate retroelement exonization and sexually dimorphicScience immunology · 2025Article
- Aere perennius: how chromatin fidelity is maintained and lost in disease.NAR molecular medicine · 2025Review
- Epigenetic ageing clocks: statistical methods and emerging computational challenges.Nature reviews. Genetics · 2025Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The establishment of aging clocks highlighted the strong link between changes in DNA methylation and aging. Yet, it is not known if other epigenetic features could be used to predict age accurately. Furthermore, previous studies have observed a lack of effect of age-related changes in DNA methylation on gene expression, putting the interpretability of DNA methylation-based aging clocks into question. In this study, we explore the use of chromatin accessibility to construct aging clocks. We collected blood from 159 human donors and generated chromatin accessibility, transcriptomic, and cell composition data. We investigated how chromatin accessibility changes during aging and constructed a novel aging clock with a median absolute error of 5.27 years. The changes in chromatin accessibility used by the clock were strongly related to transcriptomic alterations, aiding clock interpretation. We additionally show that our chromatin accessibility clock performs significantly better than a transcriptomic clock trained on matched samples. In conclusion, we demonstrate that the clock relies on cell-intrinsic chromatin accessibility alterations rather than changes in cell composition. Further, we present a new approach to construct epigenetic aging clocks based on chromatin accessibility, which bear a direct link to age-related transcriptional alterations, but which allow for more accurate age predictions than transcriptomic clocks.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.