Simultaneously inferring T cell fate and clonality from single cell transcriptomes
Ontology highlight
ABSTRACT:
INSTRUMENT(S): Illumina HiSeq 2500, Fluidigm C1
ORGANISM(S): Mus musculus
SUBMITTER: Mike Stubbington
PROVIDER: E-MTAB-3857 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Publications
T cell fate and clonality inference from single-cell transcriptomes.
Stubbington Michael J T MJT Lönnberg Tapio T Proserpio Valentina V Clare Simon S Speak Anneliese O AO Dougan Gordon G Teichmann Sarah A SA
Nature methods 20160307 4
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. ...[more]
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