Refereed journal article or data article (A1)
T cell fate and clonality inference from single-cell transcriptomes
List of 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 number: 13
Issue number: 4
Start page: 329
End page: 332
Number of pages: 4
ISSN: 1548-7091
DOI: http://dx.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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