Fig. 9

Transcriptome analysis confirms the existence of different retinal cell populations expressing MHC class II during EAU. Three weeks after adoptive transfer, retinal single-cell suspensions were analyzed by flow cytometry and sorted into three different cell populations: MHC class II⁺CD45⁺CD11b⁺Ly6C⁺ (Plus or P), MHC class II⁺CD45⁺CD11b⁺Ly6C⁻ (Minus or M), and MHC class II⁺CD45⁻CD11b⁻Ly6C⁻ cells (Non-hematopoietic or NH). Each sample corresponds to a pool of three mice. a Cell population-dependent expression of the markers used for cell sorting. Data represented: boxplot of normalized mRNA expression levels (presented as Log₂FPKM). b Heatmap and blind clustering analysis displaying the gene expression profiles for the 30 genes with the highest variance among all samples. Each row represents an individual gene and each column a sample. c Heatmap and blind clustering analysis displaying the gene expression profiles for the 30 genes with the highest variance among Plus and Minus samples. Each row represents an individual gene and each column a sample