Single-cell DNA methylation profiling: technologies and biological applications
Open accessAbstract
DNA methylation is an epigenetic modification that plays an important role in gene expression regulation, development, and disease. Recent technological innovations have spurred the development of methods that enable us to study the occurrence and biology of this mark at the single-cell level. Apart from answering fundamental biological questions about heterogeneous systems or rare cell types, low-input methods also bring clinical applications within reach. Ultimately, integrating these data with other single-cell data sets will allow deciphering multiple layers of gene expression regulation within each individual cell. Here, we review the approaches that have been developed to facilitate single-cell DNA methylation profiling, their biological applications, and how these will further our understanding of the biology of DNA methylation.
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A number of single cell sequencing techniques have been developed to facilitate investigation of methylation.
“So far, a number of single cell sequencing techniques have in fact been developed to facilitate investigation of methylation (308).”
From Epigenetic Modifications in Stress Response Genes Associated With Childhood Trauma (2019) · cites this paper as [308]
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scELMo: Embeddings from Language Models are Good Learners for Single-cell Data Analysis
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Computational Methods for Single-Cell DNA Methylome Analysis
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The Genomics of Auditory Function and Disease
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DAMEfinder: a method to detect differential allele-specific methylation
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New horizons in the stormy sea of multimodal single-cell data integration
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Data integration for inferring context-specific gene regulatory networks
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Direct cardiac reprogramming comes of age: Recent advance and remaining challenges
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Single-Cell Epigenomics Reveals Mechanisms of Cancer Progression
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Studying Chromatin Epigenetics with Fluorescence Microscopy
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Population epigenetics: DNA methylation in the plant omics era
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- Authors
- Karemaker, I. D., & Vermeulen, M.
- Affiliations
- Radboud University Nijmegen (NL)
- Corresponding author
- Vermeulen, Michiel
- Venue
- Trends in Biotechnology
- Publisher
- Elsevier BV
- Published
- 2018-09
- Volume
- 36
- Issue
- 9
- Pages
- 952-965
- ISSN
- 0167-7799 (ISSN-L)
- OpenAlex
- W2800247524
- Cited by
- 170
- References
- 64
- Citations by year
- 2026: 8 · 2025: 18 · 2024: 17 · 2023: 24 · 2022: 25 · 2021: 30 · 2020: 23 · 2019: 23 · 2018: 2
- FWCI
- 1.91
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Trends in biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Radboud Repository (Radboud University) (submittedVersion)
- Radboud Repository (Radboud University) (submittedVersion, other-oa)
- Funders
- European Research Council (309384)
- Netherlands Organisation for Scientific Research
- Dutch Cancer Society
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Keywords
- DNA methylation, single-cell profiling, epigenetics, gene expression regulation, cellular heterogeneity, rare cell types, multi-omics integration, clinical application
- MeSH terms
- Whole Genome Sequencing, Animals, DNA, DNA Restriction Enzymes, Humans, Neurons, CpG Islands, DNA Methylation, Gene Expression Profiling, Hepatocytes, Proteomics, Epigenesis, Genetic, 5-Methylcytosine, Cell Line, Tumor, Single-Cell Analysis, Real-Time Polymerase Chain Reaction
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