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| Item Type: | Article |
|---|---|
| Title: | circVDJ-seq for T cell clonotype detection in single-cell and spatial multi-omics |
| Creators Name: | Plumbom, Izabela, Obermayer, Benedikt, Raspe, Raphael, Pascual-Reguant, Anna, Theurillat, Ilan, Pentimalli, Tancredi Massimo, Hsieh, Yu-Hsin, Gil, Marine, Dietrich, Carola, Seeger-Zografakis, Michaela, Quedenau, Claudia, Wilde, Jeannine, Braeuning, Caroline, Fischer, Cornelius, Schuelke, Markus, Seitz, Volkhard, Ludwig, Leif S., Eggert, Angelika, Rajewsky, Nikolaus, Borodina, Tatiana, Beule, Dieter, Altmueller, Janine, Radbruch, Helena, Hauser, Anja Erika and Conrad, Thomas |
| Abstract: | Monitoring T cell repertoires in human tissues provides important insights into immune response mechanisms in cancer, infectious diseases, and autoimmunity. However, retrieving VDJ information from single-cell and spatial transcriptomics workflows with 3’-barcoding of cDNA remains resource-intensive or requires specialized sequencing equipment. Here, we introduce circVDJ-seq for simplified and cost-efficient T cell receptor (TCR) profiling from 3’-directed workflows like single-cell or single-nucleus RNA sequencing, ATAC + RNA multi-omics, and spatial transcriptomics. Application of circVDJ-seq to freshly resected neuroblastomas and postmortem lymph nodes affected by pneumonia or COVID-19 reveals distinct immune microenvironments and T cell clonality patterns, highlighting broad utility across diverse clinical contexts. |
| Keywords: | TCR Sequencing, Single-Cell Immune Profiling, Adaptive Immunity, Spatial Transcriptomics, Tumor Microenvironment |
| Source: | Genome Medicine |
| ISSN: | 1756-994X |
| Publisher: | BioMed Central |
| Volume: | 18 |
| Number: | 1 |
| Page Range: | 84 |
| Date: | 11 June 2026 |
| Official Publication: | https://doi.org/10.1186/s13073-026-01691-1 |
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