Pluto Bioinformatics

GSE134874: RNA-seq analysis of immune responses from human blood monocyte dendritic cells from 3 donors stimulated with 5 pattern recognition receptor (PRR) ligands along with their pairwise and triplet combinations

Bulk RNA sequencing

In this study, we hypothesized that the effects of higher-order combinations of microbial stimuli can be accurately predicted from the effects of single and pairwise stimulations. To test this, we set up a DC-T coculture system and measured the effects of 7 PRR ligands and their all possible two- and three-way ligand combinations in our, leading to 21 pairs and 35 triplets in total. Using a statistical framework, we accurately predicted the effects of higher-order combinations of agonists for pathogen-sensing pathways using only the information on the effects from single and pairwise stimulations obtained from our DC-T coculture assay. Furthermore, our study suggested that three-way ligand combination induced activation of pathogen-sensing pathways does not lead to the regulation of new genes at the level of chromatin, transcription and cytokine secretion compared to corresponding ligand singles and pairs. SOURCE: Nicolas Chevrier (nchevrier@uchicago.edu) - Nicolas Chevrier The University of Chicago