“…The Mac III cluster uniquely expressed alveolar macrophage signature genes ( Car4, Bhlhe41, Trim29 ) ( Figure 4A , Table 3 ). Top pathways included the inflammatory response ( Figure 4—figure supplement 1 ), including numerous genes that constrain inflammation ( Cd200r4, Gpnmb, Il1rn ) ( Ripoll et al, 2007 ; Zhang et al, 2004 ), and lipid catabolic processes, including the genes Lpl, Lipa, and Abcg1, indicative of their essential role in surfactant catabolism ( Eckert et al, 1983 ; Baker et al, 2010 ). Tissue remodeling was also identified as a top pathway, including Ctsk , a cysteine protease important for the maintenance of airway structural integrity ( Zhang et al, 2011 ), Serpine1 , a serine protease that can either inhibit ( Wu et al, 2015 ) or promote angiogenesis ( Bajou et al, 2014 ), and Il18 , a pro-inflammatory cytokine that drives both pulmonary vascular and parenchymal remodeling ( Rodriguez-Menocal et al, 2014 ; Kang et al, 2012 ).…”