Home > Publications Database > Chromatin accessibility profiling of targeted cell populations with laser capture microdissection coupled to ATAC-seq. > print

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024 7 _ |a pmc:PMC10626193
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024 7 _ |a 10.1016/j.crmeth.2023.100598
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024 7 _ |a pmid:37776856
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037 _ _ |a DZNE-2023-01044
041 _ _ |a English
082 _ _ |a 610
100 1 _ |a Carraro, Caterina
|0 P:(DE-2719)9001303
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245 _ _ |a Chromatin accessibility profiling of targeted cell populations with laser capture microdissection coupled to ATAC-seq.
260 _ _ |a Cambridge, MA
|c 2023
|b Cell Press
336 7 _ |a article
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336 7 _ |a ARTICLE
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520 _ _ |a 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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650 _ 7 |a ATAC-seq
|2 Other
650 _ 7 |a CP: Molecular biology
|2 Other
650 _ 7 |a chromatin accessibility
|2 Other
650 _ 7 |a epigenomics
|2 Other
650 _ 7 |a laser capture microdissection
|2 Other
650 _ 7 |a spatial omics
|2 Other
650 _ 7 |a Chromatin
|2 NLM Chemicals
650 _ 2 |a Chromatin: genetics
|2 MeSH
650 _ 2 |a Chromatin Immunoprecipitation Sequencing
|2 MeSH
650 _ 2 |a Laser Capture Microdissection
|2 MeSH
650 _ 2 |a Gene Expression Profiling
|2 MeSH
650 _ 2 |a Freezing
|2 MeSH
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700 1 _ |a Bonaguro, Lorenzo
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700 1 _ |a Srinivasa, Rachana
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700 1 _ |a van Uelft, Martina
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700 1 _ |a Isakzai, Victoria
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700 1 _ |a Schulte-Schrepping, Jonas
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700 1 _ |a Gambhir, Prerna
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700 1 _ |a Elmzzahi, Tarek
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700 1 _ |a Montgomery, Jessica V
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700 1 _ |a Hayer, Hannah
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700 1 _ |a Li, Yuanfang
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700 1 _ |a Theis, Heidi
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700 1 _ |a Kraut, Michael
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700 1 _ |a Mahbubani, Krishnaa T
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700 1 _ |a Aschenbrenner, Anna C
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700 1 _ |a König, Ireen
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700 1 _ |a Fava, Eugenio
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700 1 _ |a Fried, Hans-Ulrich
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700 1 _ |a De Domenico, Elena
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700 1 _ |a Beyer, Marc
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700 1 _ |a Saglam, Adem
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700 1 _ |a Schultze, Joachim L
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773 _ _ |a 10.1016/j.crmeth.2023.100598
|g Vol. 3, no. 10, p. 100598 -
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