Fig. 6: The disparities in the regulation of cell communication, growth signals, and transcription factors between progenitor-like cells and LPLCs.

A GO term enrichments for shared genes between progenitor-like cells and LPLCs LPLC-specific DAGs. Inset, the unique and shared DAGs between progenitor-like cells and LPLCs showing in the Venn plot. B The strength of cell communication incoming and outgoing for different cell types in the DDC model snRNA-seq data on D17 (17th day undergoing DDC diet) and R2 (2th day regeneration). The x-and y-axes are the total outgoing or incoming interaction probabilities associated with each cell type, respectively. The size of the dots was correlated with the number of inferred interactions, both outgoing and incoming, for each cell type. C The upset plots illustrating the quantity and comparison of cell interactions between LPLCs and other cell types at D17 and R2 in the DDC model, as well as between Cluster2 (progenitor-like cells in PHx scRNA-seq data) and other cell types in 8H samples (Top). Schematic diagram of the interaction (Bottom). D Cell Interactions between cell types associated with LPLCs. The color representing communication probability. The size of dots representing P. E K-means clustering (k = 2) of Stereo-seq data from PHx (Top) and DDC (Bottom) models based on PRG (progenitor-related genes) and RRG (regeneration-related genes) module scores, respectively. PLH (progenitor-like hepatocytes): High module score regions in PHx model (red). LPLC (liver progenitor-like cells): High module score regions in DDC model (red). SR (surrounding region): 0.5 μm periphery of progenitor zones (white outline). BG (background): Remaining tissue areas (gray). F Violin plots showing differential expression of Pdgfa and Pdgfra across spatial regions in the PHx model (Top) and DDC model (Bottom). ***P < 0.001. P was calculated by T-test. The horizontal line within each violin plot denotes the average gene expression level. G Cell type-specific expression patterns of highly expressed genes in hepatic progenitor cell-enriched regions from the PHx model. H Same as G but from the D17 stage of DDC model. I Same as G but from the R2 stage of DDC model. J The expression of growth factors in the PHx scRNA-seq data (Top) and DDC-diet model scRNA-seq (Bottom). Color indicates relative expression across all time points and dot size indicates the percentage of cells in that time point expressing the gene. ***P < 0.001. P was calculated by T-test.