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@ARTICLE{Gemnd:280054,
      author       = {Gemünd, Ioanna and Bonaguro, Lorenzo and Becker, Matthias
                      and Müller, Sophie and Joos, Clemens and De Domenico, Elena
                      and Aschenbrenner, Anna C and Schultze, Joachim L and
                      Moosmann, Andreas and Beyer, Marc D},
      title        = {{C}haracterization of human {CMV}-specific {CD}8+ {T} cells
                      using multi-layer single-cell omics.},
      journal      = {Cell reports / Methods},
      volume       = {5},
      number       = {7},
      issn         = {2667-2375},
      address      = {Cambridge, MA},
      publisher    = {Cell Press},
      reportid     = {DZNE-2025-00891},
      pages        = {101085},
      year         = {2025},
      abstract     = {In this study, we established a comprehensive workflow to
                      collect multi-omics single-cell data using a commercially
                      available micro-well-based platform. This included whole
                      transcriptome, cell surface markers (targeted
                      sequencing-based cell surface proteomics), T cell
                      specificities, adaptive immune receptor repertoire (AIRR)
                      profiles, and sample multiplexing. With this technique, we
                      identified paired T cell receptor sequences for three
                      prominent human CMV epitopes. In addition, we assessed the
                      ability of dCODE dextramers to detect antigen-specific T
                      cells at low frequencies by estimating sensitivities and
                      specificities when used as reagents for single-cell
                      multi-omics.},
      keywords     = {Humans / Cytomegalovirus: immunology / Single-Cell
                      Analysis: methods / CD8-Positive T-Lymphocytes: immunology /
                      CD8-Positive T-Lymphocytes: metabolism / Proteomics: methods
                      / Transcriptome / Receptors, Antigen, T-Cell: metabolism /
                      Cytomegalovirus Infections: immunology / BD Rhapsody (Other)
                      / CD8(+) T cells (Other) / CMV (Other) / CP: immunology
                      (Other) / TCR sequencing (Other) / antigen-specific T cells
                      (Other) / dCODE dextramers (Other) / single-cell multi-omics
                      (Other) / systems immunology (Other) / Receptors, Antigen,
                      T-Cell (NLM Chemicals)},
      cin          = {AG Beyer / AG Schultze / AG Bonaguro / AG Becker / AG
                      Aschenbrenner / PRECISE},
      ddc          = {610},
      cid          = {I:(DE-2719)1013035 / I:(DE-2719)1013038 /
                      I:(DE-2719)1016005 / I:(DE-2719)5000079 / I:(DE-2719)5000082
                      / I:(DE-2719)1013031},
      pnm          = {351 - Brain Function (POF4-351) / 354 - Disease Prevention
                      and Healthy Aging (POF4-354) / 352 - Disease Mechanisms
                      (POF4-352)},
      pid          = {G:(DE-HGF)POF4-351 / G:(DE-HGF)POF4-354 /
                      G:(DE-HGF)POF4-352},
      experiment   = {EXP:(DE-2719)PRECISE-20190321},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:40555232},
      doi          = {10.1016/j.crmeth.2025.101085},
      url          = {https://pub.dzne.de/record/280054},
}