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cosmx platform  (Spatial Transcriptomics Inc)

 
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    Spatial Transcriptomics Inc cosmx platform
    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).
    Cosmx Platform, supplied by Spatial Transcriptomics Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/cosmx platform/product/Spatial Transcriptomics Inc
    Average 86 stars, based on 1 article reviews
    cosmx platform - by Bioz Stars, 2026-06
    86/100 stars

    Images

    1) Product Images from "Acute Phase Response-driven Hepatic Niche Remodeling Promotes Fibrosis Resolution After Alcohol Cessation"

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

    Journal: Cellular and Molecular Gastroenterology and Hepatology

    doi: 10.1016/j.jcmgh.2025.101689

    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).
    Figure Legend 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).

    Techniques Used: Plex Assay, Membrane, Staining, Gene Expression



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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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    Image Search Results


    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