ArticleCell reports methods2023
Chromatin accessibility profiling of targeted cell populations with laser capture microdissection coupled to ATAC-seq.
Article in Cell reports methods, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- 3D multi-omics tumour atlases: from technology to biology and clinical translation.Nature reviews. Cancer · 2026Review
- Review
- Advances in spatial omics for the analysis of prostate cancer.Analytical and bioanalytical chemistry · 2026Review
- Histo-LCM-Hi-C Reveals 3D Chromatin Conformations of Spatially Localized Rare Cells in Tissues at High Resolution.Genomics, proteomics & bioinformatics · 2026Article
- Assay for Transposase-Accessible Chromatin Sequencing (ATAC-seq) of Cancer Cells in Culture.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Laser-Capture Microdissection Followed by ATAC-Seq.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Tumor heterogeneity as a driver of drug resistance and its implications for personalized therapy.Cancer drug resistance (Alhambra, Calif.) · 2026Review
- Advances in Epigenomic Sequencing and Their Applications in Cancer Diagnostics.Precision chemistry · 2025Review
- Unravelling tumour spatiotemporal heterogeneity using spatial multimodal data.Clinical and translational medicine · 2025Review
- Tackling neurodegenerationFrontiers in molecular neuroscience · 2024Review
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Authors and funding
22 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Spatially resolved omics technologies reveal context-dependent cellular regulatory networks in tissues of interest. Beyond transcriptome analysis, information on epigenetic traits and chromatin accessibility can provide further insights on gene regulation in health and disease. Nevertheless, compared to the enormous advancements in spatial transcriptomics technologies, the field of spatial epigenomics is much younger and still underexplored. In this study, we report laser capture microdissection coupled to ATAC-seq (LCM-ATAC-seq) applied to fresh frozen samples for the spatial characterization of chromatin accessibility. We first demonstrate the efficient use of LCM coupled to in situ tagmentation and evaluate its performance as a function of cell number, microdissected areas, and tissue type. Further, we demonstrate its use for the targeted chromatin accessibility analysis of discrete contiguous or scattered cell populations in tissues via single-nuclei capture based on immunostaining for specific cellular markers.
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Registered trials
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