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. 2023 Jan 20;33(2):147–164. doi: 10.1038/s41422-022-00760-5

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 3 — a t-SNE plot of the monocyte/MoMF/Kupffer cell populations isolated on day 3 post drug administration and transplantation from healthy (blue), PBS-treated ALF (red) and hEnSC-transplanted ALF (hEnSC) (green) rat livers. For each sample of scRNA-seq, the monocyte/MoMF/Kupffer cell populations isolated from 3 independent animals under identical treatment were combined. Cells other than monocytes/MoMFs/Kupffer cells were removed by pan-macrophage marker Cd68 before analysis. Batch effect was corrected based on the expression of the house-keeping genes. b Top 15 GO terms enriched in each indicated condition. IFN signaling-related GO terms are underscored with red lines. c t-SNE plots showing the separation and clustering of Kupffer cell (Clec4f⁺) and MoMF/monocyte (Clec4f^–) populations based on the expression of Kupffer cell marker Clec4f. d, e GO analysis of cell subpopulations in Kupffer cell and infiltrated monocyte/MoMF cohorts as shown in c. The sample constitutions of each cluster are marked by color-coded squares. Blue: healthy group; Red: PBS-treated ALF group; Green: hEnSC-transplanted ALF group. Anti-inflammatory clusters are marked with green frames. See also Supplementary information, Figs. S8–S11.