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@ARTICLE{Carraro:265800,
      author       = {Carraro, Caterina and Bonaguro, Lorenzo and Srinivasa,
                      Rachana and van Uelft, Martina and Isakzai, Victoria and
                      Schulte-Schrepping, Jonas and Gambhir, Prerna and Elmzzahi,
                      Tarek and Montgomery, Jessica V and Hayer, Hannah and Li,
                      Yuanfang and Theis, Heidi and Kraut, Michael and Mahbubani,
                      Krishnaa T and Aschenbrenner, Anna C and König, Ireen and
                      Fava, Eugenio and Fried, Hans-Ulrich and De Domenico, Elena
                      and Beyer, Marc and Saglam, Adem and Schultze, Joachim L},
      title        = {{C}hromatin accessibility profiling of targeted cell
                      populations with laser capture microdissection coupled to
                      {ATAC}-seq.},
      journal      = {Cell reports / Methods},
      volume       = {3},
      number       = {10},
      issn         = {2667-2375},
      address      = {Cambridge, MA},
      publisher    = {Cell Press},
      reportid     = {DZNE-2023-01044},
      pages        = {100598},
      year         = {2023},
      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.},
      keywords     = {Chromatin: genetics / Chromatin Immunoprecipitation
                      Sequencing / Laser Capture Microdissection / Gene Expression
                      Profiling / Freezing / ATAC-seq (Other) / CP: Molecular
                      biology (Other) / chromatin accessibility (Other) /
                      epigenomics (Other) / laser capture microdissection (Other)
                      / spatial omics (Other) / Chromatin (NLM Chemicals)},
      cin          = {AG Schultze / Schultze - PRECISE / AG Beyer / AG
                      Aschenbrenner ; AG Aschenbrenner / LMF / AG Fava},
      ddc          = {610},
      cid          = {I:(DE-2719)1013038 / I:(DE-2719)1013031 /
                      I:(DE-2719)1013035 / I:(DE-2719)5000082 / I:(DE-2719)1040180
                      / I:(DE-2719)1040000},
      pnm          = {352 - Disease Mechanisms (POF4-352) / 354 - Disease
                      Prevention and Healthy Aging (POF4-354) / 351 - Brain
                      Function (POF4-351)},
      pid          = {G:(DE-HGF)POF4-352 / G:(DE-HGF)POF4-354 /
                      G:(DE-HGF)POF4-351},
      experiment   = {EXP:(DE-2719)PRECISE-20190321 / EXP:(DE-2719)LMF-20190308},
      typ          = {PUB:(DE-HGF)16},
      pmc          = {pmc:PMC10626193},
      pubmed       = {pmid:37776856},
      doi          = {10.1016/j.crmeth.2023.100598},
      url          = {https://pub.dzne.de/record/265800},
}