A1 Refereed original research article in a scientific journal
T cell fate and clonality inference from single-cell transcriptomes
Authors: Stubbington MJT, Lonnberg T, Proserpio V, Clare S, Speak A, Dougan G, Teichmann SA
Publisher: NATURE PUBLISHING GROUP
Publication year: 2016
Journal:: Nature Methods
Journal name in source: NATURE METHODS
Journal acronym: NAT METHODS
Volume: 13
Issue: 4
First page : 329
Last page: 332
Number of pages: 4
ISSN: 1548-7091
DOI: https://doi.org/10.1038/NMETH.3800
Abstract
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 Salmonella infection model span early activated CD4(+) T cells as well as mature effector and memory cells.
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 Salmonella infection model span early activated CD4(+) T cells as well as mature effector and memory cells.
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