The cell metadata for this experiment are provided in the Excel file "Metadata_TARGETseq.xlsx".

Raw FASTQ files for each sequenced cell, containing nucleotide base sequences and respective quality scores, are provided in the "TARGETseq.RawData.zip" file found in the "FASTQs" folder. Associated quality control metrics are included in the "multiqc_results.zip" file, including an html file summarizing the experiment.

FASTQ files were processed as described in the associated publication to generate count matrices. An overall count matrix after QC steps is provided in TARGETseq.ProcessedData.rds, which already includes all metadata from the associated file. This .rds file was generated using Seurat 3.1.4 and is an analysis-ready file that may be read directly with Seurat or other compatible packages for single-cell data analysis.

A differential RNA splicing analysis was performed using pseudobulk files collating all STAR-aligned cell-specific BAM files from each FACS-purified cell type, biological donor and/or visit (including only cells that passed quality control). These pseudobulk BAM files and indices are located in the folder "PseudobulkBAMs". Raw rMATS results and data tables are collated in the file "TARGETseq.DiffSplicing.rMATS.Raw.zip".