Transcriptional analysis of cDC subsets in Irf8+32 -/- and Zeb2 -165(d1+2+3) mice

To determine if the residual cDC subsets in the ?1+2+3 and ?32 mice reflected their normal counterparts, we performed bulk RNA-sequencing analysis of cDC1 and cDC2 from WT, ?1+2+3 and ?32 mice. cDC1 from WT and ?1+2+3 clustered together in principal component analysis (PCA) plot, whereas cDC2 from WT and ?32 mice cluster together. Further, cDC1 and cDC2 from WT mice show a large number of differentially expressed genes (DEGs), as expected. However, there were few DEGs in cDC1 between WT and ?1+2+3 mice, or in cDC2 between WT and ?32 mice, indicating no substantive transcriptional differences between corresponding cDC subsets in WT, ?32 and ?1+2+3 mice. Overall design: mRNA profiles of splenic cDC1 and cDC2 isolated from WT, Irf8 +32-/-, or Zeb2 -165(d1+2+3) mice