scRNA-seq of thymic epithelial cells from Aire-knockout rats

This dataset investigates the impact of Aire deficiency on thymic stromal
cell subpopulations in rats using single-cell RNA sequencing (scRNA-seq).
CD45-, EpCAM+ thymic epithelial cells (TECs) were isolated from the thymi
of 6-week-old Aire-knockout (n=4) and Aire-heterozygous control (n=3) rats
via flow cytometry. The cells underwent enzymatic digestion to enrich the
stromal compartment, and single cells were processed using the 10x
Chromium platform with barcoded cDNA libraries prepared using the
single-cell 3’ mRNA kit. Sequencing was performed on the Illumina MiSeq
platform, and gene expression data were mapped to the Rattus norvegicus
reference genome (Rnor_6.0) using Cell Ranger (v6.0.1). The dataset
includes processed count matrices generated by Cell Ranger.