PI3K Signaling Specifies Proximal-Distal Fate by Driving a Developmental Gene Regulatory Network in SOX9+ Lung Progenitors [ATAC-seq]

In order to understand the epigenetic mechanisms directing development and differentiation of SOX9+ lung epithelial progenitor cells (EPCs), paired RNA-Seq and ATAC-Seq was performed on SOX9+ EPCs sorted using flow cytometry from a Sox9-GFP reporter mouse. GFP+ positive lung epithelium was isolated by flow cytometry by selecting GFP+, CD326+, CD31-, CD45-, 7-AAD-negative cells into cell culture media. Nuclei were isolated, the transposase reaction was performed with Nextera Tn5 transposase (Illumina), and PCR amplification was performed according to previously published protocols (Buenrostro et al. 2015a).