RNA-seq profiling of wild type and Trim33-/- splenic dendritic cells

The homeostatic control mechanism of dendritic cells (DCs), including pDCs, cDC1s and cDC2s, is not fully elucidated. Transcriptome profiling of wildtype and TRIM33 conditional knockout mice revealed a key role of TRIM33 in maintaining the homeostasis of all DC subsets. Overall design: Splenic pDCs (CD11c+ SiglecH+), cDC1s (CD11c+ SiglecH- MHC II+ CD24+ CD172a-) and cDC2s (CD11c+ SiglecH- MHC II+ CD24- CD172a+) of 6 to 8-week old Trim33fl/fl (WT) or Trim33fl/fl Itgax-Cre (KO) mice were isolated from spleen by depleting non-DC lineage with a homemade antibody cocktail and fluorescent activated cell sorting. Total RNA was extracted with the TRIzol reagent. 2 - 3 biological replicates were prepared for each cell subset of each genotype. Transcriptome was profiled by RNA-seq at the Beijing Genomics Institution (BGI) on the BGISEQ-500 platform to generate 50 base-pair single end reads.