“…Analysis of the marker genes for these clusters revealed biological subtypes including M2-like macrophages (37.3% of cells), M1 macrophages (35.7%), typical M2 macrophages (15.3%), dendritic cells (5.1%), foam macrophages (2.6%), neutrophils (2.5%), and two clusters of undefined cell types (1.4%). Our M1/M2 macrophages definition was based on previous published literature including [ 57 , 58 , 59 , 60 , 61 , 62 , 63 , 64 , 65 , 66 , 67 , 68 , 69 , 70 , 71 , 72 , 73 , 74 , 75 , 76 ] ( Table 2 ). We defined typical M2 by high expression of Trem2 and showed that they have expression patterns consistent with M2-like macrophages but with even higher expression of Slc9a3r2 , Timp2 , and Gpnmb ( Figure 3 b and Figure S1 ).…”