Genomic, epigenomic, and biophysical cues controlling the emergence of the lung alveolus

All mouse experiments used CD-1 female mice with the age indicated in the libraries . Single-cell suspensions were prepared from whole mouse lungs. For all libraries, DAPI-negative cells were were sorted by flow cytometry to obtain heterogeneous whole lung sample. Human tissue was derived from normal peripheral lung tissue. Single cell suspension was depleted of CD45-positive cells by bead selection. All of the murine post-natal timepoints also had CD45-positive cells removed from cell sort. Single-cell barcoded droplets were produced using 10X Single Cell 3’ v2 chemistry. Libraries generated were sequenced using HiSeq2500 instrument in High-output mode. Reads were aligned and gene level unique molecular identifier (UMI) counts were obtained using the Cell Ranger pipeline.

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