T cell fate and clonality inference from single-cell transcriptomes



: Stubbington MJT, Lonnberg T, Proserpio V, Clare S, Speak A, Dougan G, Teichmann SA

Publisher: NATURE PUBLISHING GROUP

: 2016

: Nature Methods

: NATURE METHODS

: NAT METHODS

: 13

: 4

: 329

: 332

: 4

: 1548-7091

DOI: https://doi.org/10.1038/NMETH.3800


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.



Last updated on 2024-26-11 at 14:14