T cell fate and clonality inference from single-cell transcriptomes
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Open Access
- 7 March 2016
- journal article
- research article
- Published by Springer Nature in Nature Methods
- Vol. 13 (4) , 329-332
- https://doi.org/10.1038/nmeth.3800
Abstract
The TraCeR tool extracts full-length, paired T cell receptor sequences from single-cell RNA-sequencing data from T lymphocytes, enabling a combination of clonotype and functional analysis. 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.Keywords
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