Fig. 8
Expression of selected gene products associated with antigen processing and presentation (GO:0019882), and lymphocyte co-stimulation (GO:0031294) in the rat LSECs and KCs transcriptome and proteome. Each blue dot represents abundance of gene products in an LSEC sample and each red dot represents abundance in a KC sample. The dot plots on the left illustrate the abundance of mRNA (log2 (RPKM+ 1)) in the transcriptome, and the right plots illustrate the corresponding gene expression value in the proteome (log2 (iBAQ+ 1)). *Significantly higher in LSECs, #significantly higher in KCs. Significance level: FDR ≤ 0.05 and |log2 fold change| ≥ 1. a. Gene products involved in antigen processing (immune proteases: Psme1, Psme2), transport of processed peptide into the endosome for loading into MHC molecules (Tap1, Tap2, Tapbp), accessory proteins in loading and sorting of MHC molecules to endolysosome (Ifi30, Pdia3), and the invariant chain (Cd74). b. Lysosomal hydrolases annotated to be associated with MHC class II antigen processing. c. MHC class II gene products. d. Co-stimulatory factors involved in lymphocyte activation