Fig. 5

Downregulation of the MHC class I antigen presentation machinery in Stat1^−/− T cells. RNA-seq was performed on WT or Stat1^−/− T cells pre-transfer. a Schematic of experimental setup and selected Gene ontology terms (PANTHER) showing differential expression of the MHC class I pathway in Stat1^−/− T cells. b Downregulation of various genes involved in MHC class I antigen presentation in Stat1^−/− T cells compared to WT T cells by RNA-seq. All genes displayed are significantly different between WT and Stat1^−/− T cells (n = 3 biological replicates, p < 0.05 with correction for multiple testing by Benjamini-Hochberg procedure). Accompanied by Supplementary Fig. 2 where similar analyses were performed in T cells post transfer. c Representative flow cytometry plots showing surface expression of classical and non-classical MHC class I molecules on CD4⁺ T cells from the spleens of WT or Stat1^−/− mice, followed by their cumulative enumeration expressed as a ratio of Median Fluorescence Intensity (Stat1^−/− / WT) ± SEM. Data is pooled from three or more independent experiments, with each point representing an individual mouse. Similar numbers of WT and Stat1^−/− mice were used for the comparison