Transcriptomics of THP-1 EVs released after inflammasome or TLR stimulation

Inflammasome-activated cells undergo an inflammatory cell death associated with the release of potent pro-inflammatory cytokines and poorly characterized extracellular vesicles (EVs). Since inflammasome-induced EVs could signal inflammasome pathway activation in patients with chronic inflammation and modulate bystander cell activation, we performed a systems analysis of the RNA content and function of two EV classes. Therefore, PMA-differentiated THP-1 macrophages were either stimulated with inflammasome activators or TLR ligands and subsequently differently sized EVs (10K and SEC EVs) were isolated from the tissue culture supernatant. The RNA contained within EV preparations was extracted and subjected to the Clariom D microarray. Web link to Clariom D chip: https://www.thermofisher.com/order/catalog/product/902925?de&en#/902925?de&en Five replicates of each sample were generated, i.e., 110 samples were subjected to a Clariom D Pico microarray. Microarrays were processed in four batches. We removed 17 samples from the analysis due to failed mid-assay quality controls or scan issues. The input RNA amount per sample was 1 ng for 87 samples and < 1 ng for six samples.