Bulk and single‐cell gene expression network analysis in mouse models of AD using PyWGCNA

Mouse models of human diseases such as Alzheimer disease (AD) are one of the most important tools for studying pathogenic mechanisms and testing interventions and therapeutics. While much of the characterization of gene expression changes to date has been done with “bulk” RNA‐seq in tissues such as hippocampus and cortex, the advent of single‐cell and single nucleus functional genomics assays allow us to analyze those changes at the level of individual cell subtypes. However, we would like to compare the relatively sparse and noisy single‐cell assays to bulk RNA‐seq to deconvolve which cells are driving the changes observed in the previously collected bulk datasets.