Tapio Lönnberg

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We developed TraCeR, a computational method to reconstruct full-length, paired T cell receptor (TCR) sequences from T lymphocyte single-cell RNA sequence data. TraCeR links T cell specificity with functional response by revealing clonal relationships between cells alongside their transcriptional profiles. We found that T cell clonotypes in a mouse(More)
Differentiation of lymphocytes is frequently accompanied by cell cycle changes, interplay that is of central importance for immunity but is still incompletely understood. Here, we interrogate and quantitatively model how proliferation is linked to differentiation in CD4+ T cells. We perform ex vivo single-cell RNA-sequencing of CD4+ T cells during a mouse(More)
In the last lustrum single-cell techniques such as single-cell quantitative PCR, RNA and DNA sequencing, and the state-of-the-art cytometry by time of flight (CyTOF) mass cytometer have allowed a detailed analysis of the sub-composition of different organs from the bone marrow hematopoietic compartment to the brain. These fine-grained analyses have(More)
Erratum After the publication of this work [1] it was noticed that four authors were omitted from the author list and author contributions. These authors have now been added to the list, and the updated author contributions are included below. Authors' contributions VP, LHV, KNN, JP and TL carried out ex vivo/in vitro experiments. RM and KRJ carried out in(More)
The heterodimeric T cell receptor (TCR) comprises two protein chains that pair to determine the antigen specificity of each T lymphocyte. The enormous sequence diversity within TCR repertoires allows specific TCR sequences to be used as lineage markers for T cells that derive from a common progenitor. We have developed a computational method, called TraCeR,(More)
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