TY  - JOUR
AU  - Gemünd, Ioanna
AU  - Bonaguro, Lorenzo
AU  - Becker, Matthias
AU  - Müller, Sophie
AU  - Joos, Clemens
AU  - De Domenico, Elena
AU  - Aschenbrenner, Anna C
AU  - Schultze, Joachim L
AU  - Moosmann, Andreas
AU  - Beyer, Marc D
TI  - Characterization of human CMV-specific CD8+ T cells using multi-layer single-cell omics.
JO  - Cell reports / Methods
VL  - 5
IS  - 7
SN  - 2667-2375
CY  - Cambridge, MA
PB  - Cell Press
M1  - DZNE-2025-00891
SP  - 101085
PY  - 2025
AB  - 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.
KW  - Humans
KW  - Cytomegalovirus: immunology
KW  - Single-Cell Analysis: methods
KW  - CD8-Positive T-Lymphocytes: immunology
KW  - CD8-Positive T-Lymphocytes: metabolism
KW  - Proteomics: methods
KW  - Transcriptome
KW  - Receptors, Antigen, T-Cell: metabolism
KW  - Cytomegalovirus Infections: immunology
KW  - BD Rhapsody (Other)
KW  - CD8(+) T cells (Other)
KW  - CMV (Other)
KW  - CP: immunology (Other)
KW  - TCR sequencing (Other)
KW  - antigen-specific T cells (Other)
KW  - dCODE dextramers (Other)
KW  - single-cell multi-omics (Other)
KW  - systems immunology (Other)
KW  - Receptors, Antigen, T-Cell (NLM Chemicals)
LB  - PUB:(DE-HGF)16
C6  - pmid:40555232
DO  - DOI:10.1016/j.crmeth.2025.101085
UR  - https://pub.dzne.de/record/280054
ER  -