RNA-seq of Mus musculus: CD4+ T CELL ACTIVATION
RNA was extracted using TRizol (ThermoFisher). Lexogen QuantSeq3 mRNA-sequencing libraries were prepared according to the manufacturers instructions. Libraries were pooled and sequenced on the Illumina NextSeq 500 system to a depth of 4 million reads per library. The initial quality of the sequencing was assessed with FASTQC (v.0.11.8). Reads were aligned against the mouse genome mm10 in STAR v2.6.1d., HTSeq-count (v0.9.1) was used to generate raw counts