Fig. 3

CellChat and Monocle analysis of macrophage subpopulations. A The circle diagram illustrates the signal crosstalk of all cells in the NASH dataset (GSE129516, left) and HCC dataset (GSE142868, right), with the thickness representing the signal strength. B All the significant ligand-receptor pairs that contribute to the signaling transmission from hepatocytes to other cell types. Dots represent the contribution of each receptor pair in signals emitted by hepatocytes toward various cells in the NASH dataset (GSE129516, left), and HCC dataset (GSE142868, right). Dot size indicates significance, while color shade represents the magnitude of contribution. Darker shades, particularly red, indicate a higher contribution, while lighter shades indicate a lower contribution. C Heatmap shows the relative importance of each cell group based on the computed four network centrality measures of the MIF signaling network in NASH (GSE129516, up) and HCC dataset (GSE142868, down). D cytoTRACE (left) and monocle2 (right) are combined to predict the differentiation potential and direction of macrophage subtypes in the NASH (GSE129516) dataset; more.diff means higher differentiation potential, and as the end point of monocle, the less.diff is considered the starting point of monocle. E cytoTRACE (left) and monocle2 (right) are combined to predict the differentiation potential and direction of macrophage subtypes in the HCC (GSE142868) dataset; more.diff means higher differentiation potential, and as the end point of monocle, the less.diff is considered the starting point of monocle. F Stratification of macrophage transcriptomes by scores generated from signature genes of four macrophage subsets in NASH dataset (GSE129516). G Stratification of macrophage transcriptomes by scores generated from signature genes of three macrophage subsets in the HCC dataset (GSE142868). (NormalMacro: classical macrophages.)