Distribution of MHC ligand-containing proteins relative to their mRNA expression levels.

The expression of the parental proteins for MHC class I and II ligands and the whole proteome were depicted as RPKM (Reads Per Kilobase per Million mapped reads) of spleen mRNA levels determined using RNA-Seq. Similar to Figs 1 and 2, the four MHC ligand datasets included in this study were separately analyzed. The code color is: whole proteome (white bars), TAP+ (magenta bars), TAP-C (green bars), TAP-NC (orange bars), and HLA-II (black bars).