The effect of modulating substratum biochemical properties on lung epithelial specification in vitro

Bulk RNA-Seq of all epithelial cell populations from both 2D-Gelatin and 3D-Matrigel conditions, namely 2D-Nkx2-1+EPCAM+ (lung epithelial progenitors derived on 2D gelatin), 3D-Nkx2-1+EPCAM+ (lung epithelial progenitors derived on 3D Matrigel), and 3D-Nkx2-1-EPCAM+ (non-lung epithelial progenitors derived on 3D Matrigel). Overall design: Nkx2-1mCherry mouse ESCs were differentiated into definitive endoderm over the course of 5 days in serum-free cSFDM medium with 50 ng/ml Activin A (R&D Systems 338-AC) added from days 2.5 to 5. The resulting embryoid bodies were plated onto P100 petri dishes in cSFDM supplemented with 100 ng/ml rmNoggin (R&D Systems 1967-NG) and 10 µM SB431542 (Sigma S4317).