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Alcohol cessation promotes transcriptomic changes in hepatocytes and non-parenchymal cell clusters. Mice were fed ad libitum WD with 20% alcohol in the drinking water for 20 weeks (WDA). For disease resolution mice were placed then on chow diet with plain water for 4 weeks (Res). Spatial transcriptomics analysis of livers from these mice (n = 2 per group, males) using 1000-plex assay <t>from</t> <t>Nanostrings</t> using <t>CosMx</t> platform. Cell boundary was assigned based on nuclear and membrane staining. Cells were analyzed using Seurat v5 package. ( A ) Top . Sirius red staining of the section adjacent to section used for transcriptional profiling. Bottom. UMAP plot of cell clusters. ( B and C ) Gene expression of genes enriched in individual clusters. ( D ) Cell abundance for each cluster across 45 FOVs. Average proportion for each cluster in WDA and Res FOVs (n = 22–23 per condition). ∗ Padj < .01; ∗∗∗ Padj < .0001. ( E ) Fold change for indicated gene transcripts between Res and WDA samples in males (M) and females (F).
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Alcohol cessation promotes transcriptomic changes in hepatocytes and non-parenchymal cell clusters. Mice were fed ad libitum WD with 20% alcohol in the drinking water for 20 weeks (WDA). For disease resolution mice were placed then on chow diet with plain water for 4 weeks (Res). Spatial transcriptomics analysis of livers from these mice (n = 2 per group, males) using 1000-plex assay from Nanostrings using CosMx platform. Cell boundary was assigned based on nuclear and membrane staining. Cells were analyzed using Seurat v5 package. ( A ) Top . Sirius red staining of the section adjacent to section used for transcriptional profiling. Bottom. UMAP plot of cell clusters. ( B and C ) Gene expression of genes enriched in individual clusters. ( D ) Cell abundance for each cluster across 45 FOVs. Average proportion for each cluster in WDA and Res FOVs (n = 22–23 per condition). ∗ Padj < .01; ∗∗∗ Padj < .0001. ( E ) Fold change for indicated gene transcripts between Res and WDA samples in males (M) and females (F).

Journal: Cellular and Molecular Gastroenterology and Hepatology

Article Title: Acute Phase Response-driven Hepatic Niche Remodeling Promotes Fibrosis Resolution After Alcohol Cessation

doi: 10.1016/j.jcmgh.2025.101689

Figure Lengend Snippet: Alcohol cessation promotes transcriptomic changes in hepatocytes and non-parenchymal cell clusters. Mice were fed ad libitum WD with 20% alcohol in the drinking water for 20 weeks (WDA). For disease resolution mice were placed then on chow diet with plain water for 4 weeks (Res). Spatial transcriptomics analysis of livers from these mice (n = 2 per group, males) using 1000-plex assay from Nanostrings using CosMx platform. Cell boundary was assigned based on nuclear and membrane staining. Cells were analyzed using Seurat v5 package. ( A ) Top . Sirius red staining of the section adjacent to section used for transcriptional profiling. Bottom. UMAP plot of cell clusters. ( B and C ) Gene expression of genes enriched in individual clusters. ( D ) Cell abundance for each cluster across 45 FOVs. Average proportion for each cluster in WDA and Res FOVs (n = 22–23 per condition). ∗ Padj < .01; ∗∗∗ Padj < .0001. ( E ) Fold change for indicated gene transcripts between Res and WDA samples in males (M) and females (F).

Article Snippet: Spatial transcriptomics analysis of livers from these mice (n = 2 per group, males) using 1000-plex assay from Nanostrings using CosMx platform.

Techniques: Plex Assay, Membrane, Staining, Gene Expression