Transcriptome Profiling of CD4+ T cell subpopulations from Aire-Knockout Rats

The dataset consists of microarray gene expression data from four key CD4+ T cell populations—Tconv, Treg, Tfh, and Tfr—isolated from 7-month-old Aire-knockout rats with high levels of anti-IFNα autoantibodies and age-matched control rats. The cells were isolated from spleens and axillary lymph nodes using flow cytometry, with each population being sorted based on specific markers (CD3+ CD4+ CD25- ICOS- for Tconv, CD25+ ICOS- for Treg, CD25- ICOS+ for Tfh, and CD25+ ICOS+ for Tfr). RNA was purified from these sorted populations, and transcriptome analysis was performed using Clariom™ S Pico Assay HT gene expression chips., Spleens and axillary lymph nodes were homogenized to create a single-cell suspension. Erythrocytes were lysed from splenic samples using an ACK solution. For transcriptome analysis, T cell populations were sorted based on specific markers (CD3+ CD4+ CD25- ICOS- for Tconv, CD3+ CD4+ CD25+ ICOS- for Treg, CD3+ CD4+ CD25- ICOS+ for Tfh, and CD3+ CD4+ CD25+ ICOS+ for Tfr) using the MA900 cell sorter. RNA was purified from the sorted cells, with quality assessed by the Agilent RNA 6000 Pico kit, and samples with a RIN >7.5 were selected for analysis. Transcriptome profiling was performed using the Genetitan MC machine on Clariom™ S Pico Assay HT gene expression chips., , # README for Microarray Dataset of T Cell Subpopulations from Aire-Knockout Rats

## Related Datasets

This dataset is part of a coordinated set of transcriptomic and single-cell transcriptomic profiles generated from **Aire-knockout rats** for the associated research article. Additional related datasets can be accessed via Dryad at the following DOIs:

* [10.5061/dryad.mpg4f4r9z](https://doi.org/10.5061/dryad.mpg4f4r9z): *Transcriptome Profiling of CD4+ T cell subpopulations*
* [10.5061/dryad.p8cz8wb1s](https://doi.org/10.5061/dryad.p8cz8wb1s): *Transcriptome Profiling of Medullary Thymic Epithelial Cells*
* [10.5061/dryad.8kprr4xz1](https://doi.org/10.5061/dryad.8kprr4xz1): *scRNA-seq of Thymic Epithelial Cells*
* [10.5061/dryad.hhmgqnksj](https://doi.org/10.5061/dryad.hhmgqnksj): *scRNA-seq of Splenic CD45+ Cells*
* [10.5061/dryad.5qfttdzhj](https://doi.org/10.5061/dryad.5qfttdzhj): *scRNA-seq of CD45+ Cells from Salivary Gland*

## Dataset Overview

This dataset contains.CEL files d...,