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high resolution slide seq spatial transcriptomics map  (Spatial Transcriptomics Inc)

 
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    Spatial Transcriptomics Inc high resolution slide seq spatial transcriptomics map
    Fig. 1 | Single-cell and spatial <t>transcriptomics</t> of cardiac and ileum tissue of reovirus-infected neonatal mice. a, Experiment and analysis workflow. Four- day-old neonatal mice weighing 3 g per pup were infected (per os) with reovirus T1L. Neonatal mice infected with 1× PBS were used as mock controls. Ileum tissue (1 dpi and 4 dpi) and heart tissues (4 dpi, 7 dpi and 10 dpi) were assayed and used for scRNA-seq and spatial transcriptomics. b, UMAP plot of 31,684 single-cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi (one animal per condition), clustered by gene expression and colored by cell type (left). UMAP plots showing cardiac cell type clusters across samples for the heart scRNA-seq data (right). c, 8,243 spatial transcriptomes of cardiac tissue sections from mock-infected and reovirus-infected mice at 4 dpi and 7 dpi (one animal per condition). H&E-stained image of reovirus-infected myocarditic
    High Resolution Slide Seq Spatial Transcriptomics Map, 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/product/high+resolution+slide+seq+spatial+transcriptomics+map/seq+slide/pm36970396-158-20-22
    Average 86 stars, based on 1 article reviews
    high resolution slide seq spatial transcriptomics map - by Bioz Stars, 2026-09
    86/100 stars

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    1) Product Images from "Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis."

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.

    Journal: Nature cardiovascular research

    doi: 10.1038/s44161-022-00138-1

    Fig. 1 | Single-cell and spatial transcriptomics of cardiac and ileum tissue of reovirus-infected neonatal mice. a, Experiment and analysis workflow. Four- day-old neonatal mice weighing 3 g per pup were infected (per os) with reovirus T1L. Neonatal mice infected with 1× PBS were used as mock controls. Ileum tissue (1 dpi and 4 dpi) and heart tissues (4 dpi, 7 dpi and 10 dpi) were assayed and used for scRNA-seq and spatial transcriptomics. b, UMAP plot of 31,684 single-cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi (one animal per condition), clustered by gene expression and colored by cell type (left). UMAP plots showing cardiac cell type clusters across samples for the heart scRNA-seq data (right). c, 8,243 spatial transcriptomes of cardiac tissue sections from mock-infected and reovirus-infected mice at 4 dpi and 7 dpi (one animal per condition). H&E-stained image of reovirus-infected myocarditic
    Figure Legend Snippet: Fig. 1 | Single-cell and spatial transcriptomics of cardiac and ileum tissue of reovirus-infected neonatal mice. a, Experiment and analysis workflow. Four- day-old neonatal mice weighing 3 g per pup were infected (per os) with reovirus T1L. Neonatal mice infected with 1× PBS were used as mock controls. Ileum tissue (1 dpi and 4 dpi) and heart tissues (4 dpi, 7 dpi and 10 dpi) were assayed and used for scRNA-seq and spatial transcriptomics. b, UMAP plot of 31,684 single-cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi (one animal per condition), clustered by gene expression and colored by cell type (left). UMAP plots showing cardiac cell type clusters across samples for the heart scRNA-seq data (right). c, 8,243 spatial transcriptomes of cardiac tissue sections from mock-infected and reovirus-infected mice at 4 dpi and 7 dpi (one animal per condition). H&E-stained image of reovirus-infected myocarditic

    Techniques Used: Infection, Gene Expression, Staining

    Fig. 3 | Cytotoxic T cells recruited by inflamed endothelial cells induce pyroptosis in myocarditic tissue. a, UMAP plot of 9,786 single-cell endothelial cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by endothelial cell subtype clusters (phenotypes) (top) and condition (bottom). b, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for endothelial cell subtypes. c, UMAP plot showing the expression of genes upregulated in Cxcl9-high endothelial cells. d, Spatial transcriptomic maps of cardiac tissue from reovirus infected hearts at 7 dpi showing gene module scores calculated for four GO terms enriched in Cxcl9-high endothelial cells. e, UMAP plot of 2,205 single-cell T cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by T cell subtype clusters (top) and condition (bottom). f, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for T cell subtypes. g, UMAP plot showing the expression of genes upregulated in cytotoxic T cells from myocarditic heart at 7 dpi. h, Spatial transcriptomics maps of cardiac tissue from reovirus infected hearts at 7 dpi
    Figure Legend Snippet: Fig. 3 | Cytotoxic T cells recruited by inflamed endothelial cells induce pyroptosis in myocarditic tissue. a, UMAP plot of 9,786 single-cell endothelial cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by endothelial cell subtype clusters (phenotypes) (top) and condition (bottom). b, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for endothelial cell subtypes. c, UMAP plot showing the expression of genes upregulated in Cxcl9-high endothelial cells. d, Spatial transcriptomic maps of cardiac tissue from reovirus infected hearts at 7 dpi showing gene module scores calculated for four GO terms enriched in Cxcl9-high endothelial cells. e, UMAP plot of 2,205 single-cell T cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by T cell subtype clusters (top) and condition (bottom). f, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for T cell subtypes. g, UMAP plot showing the expression of genes upregulated in cytotoxic T cells from myocarditic heart at 7 dpi. h, Spatial transcriptomics maps of cardiac tissue from reovirus infected hearts at 7 dpi

    Techniques Used: Infection, Expressing

    Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes
    Figure Legend Snippet: Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes

    Techniques Used: Infection, Expressing

    Related Articles

    Expressing:

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.
    Article Snippet: To find transcriptional signatures for myocytes present in the border zone, we selected genes that were both enriched in a 0 0.5 C ar di om yo cy te s 0 0.05 0.10 N eu tr op hi ls 0 0.05 0.10 N K c el ls 0 0.2 0.4 T c el ls 0 0.05 0.10 C xc l9 -h ig h in fla m ed en do th el ia l c el ls 0 0.2 D en dr iti c ce lls b c Infected-Day7 Anatomical regions Atrial CMs Ventricular CMs Inflamed CMs S ln M yl 4 M yl 7 N pp a M yl 1 F ab p3 M yl 2 M yl 3 P ln M b B 2m Is g1 5 Ir gm 1 Iig p1 Ig tp Ventricular CMs Atrial CMs Inflamed CMs Mock-Day4 Infected-Day4 Mock-Day7 Infected-Day7 Mock-Day10 Infected-Day10 Fraction of cells (%) –5 0 5 log fold change 20 40 60 10080 d e f 2,059 7528 Inflamed myocyte markers Border zone myocyte markers Border zone markers Myocyte subtypes Condition Inflamed atria Inflamed ventricle Myocarditic region Border zone Outflow tract Chamber cavity Timp1 0 2 AW112010 0 1 Clu 0 2 Ankrd1 0 2.5 Gm4841 0 2 Ctss 0 1 Gm4841 UMAP1 U M A P 2 UMAP1 U M A P 2 0 2 Mt1 0 5 Mt2 0 2 Ankrd1 0 5 Nppb 0 5 Gm12185 0 2 h iClu Nppa Low High 0.3 mm 0.5 mm g CardiacSlide-seqclusters Cardiomyocytes-1 Cardiomyocytes-2 Border zone cardiomyocytes T cells Dendritic cells Fibroblasts Cxcl9-high endothelial cells Neutrophils Erythroblasts Mock Infected 500 μm 500 μm T nn t2 C lu N pp a Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes upregulated in the border zone around the myocarditic regions (left). .. UMAP plot showing the expression of myocyte-specific genes that are upregulated in the border zone of myocarditic regions (right). g, High-resolution Slide-seq spatial transcriptomics map of cardiac ventricular tissue from reovirus infected mice at 7 dpi colored by Slide-seq bead clusters. ..

    Spatial Transcriptomics:

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.
    Article Snippet: To find transcriptional signatures for myocytes present in the border zone, we selected genes that were both enriched in a 0 0.5 C ar di om yo cy te s 0 0.05 0.10 N eu tr op hi ls 0 0.05 0.10 N K c el ls 0 0.2 0.4 T c el ls 0 0.05 0.10 C xc l9 -h ig h in fla m ed en do th el ia l c el ls 0 0.2 D en dr iti c ce lls b c Infected-Day7 Anatomical regions Atrial CMs Ventricular CMs Inflamed CMs S ln M yl 4 M yl 7 N pp a M yl 1 F ab p3 M yl 2 M yl 3 P ln M b B 2m Is g1 5 Ir gm 1 Iig p1 Ig tp Ventricular CMs Atrial CMs Inflamed CMs Mock-Day4 Infected-Day4 Mock-Day7 Infected-Day7 Mock-Day10 Infected-Day10 Fraction of cells (%) –5 0 5 log fold change 20 40 60 10080 d e f 2,059 7528 Inflamed myocyte markers Border zone myocyte markers Border zone markers Myocyte subtypes Condition Inflamed atria Inflamed ventricle Myocarditic region Border zone Outflow tract Chamber cavity Timp1 0 2 AW112010 0 1 Clu 0 2 Ankrd1 0 2.5 Gm4841 0 2 Ctss 0 1 Gm4841 UMAP1 U M A P 2 UMAP1 U M A P 2 0 2 Mt1 0 5 Mt2 0 2 Ankrd1 0 5 Nppb 0 5 Gm12185 0 2 h iClu Nppa Low High 0.3 mm 0.5 mm g CardiacSlide-seqclusters Cardiomyocytes-1 Cardiomyocytes-2 Border zone cardiomyocytes T cells Dendritic cells Fibroblasts Cxcl9-high endothelial cells Neutrophils Erythroblasts Mock Infected 500 μm 500 μm T nn t2 C lu N pp a Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes upregulated in the border zone around the myocarditic regions (left). .. UMAP plot showing the expression of myocyte-specific genes that are upregulated in the border zone of myocarditic regions (right). g, High-resolution Slide-seq spatial transcriptomics map of cardiac ventricular tissue from reovirus infected mice at 7 dpi colored by Slide-seq bead clusters. ..

    Infection:

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.
    Article Snippet: To find transcriptional signatures for myocytes present in the border zone, we selected genes that were both enriched in a 0 0.5 C ar di om yo cy te s 0 0.05 0.10 N eu tr op hi ls 0 0.05 0.10 N K c el ls 0 0.2 0.4 T c el ls 0 0.05 0.10 C xc l9 -h ig h in fla m ed en do th el ia l c el ls 0 0.2 D en dr iti c ce lls b c Infected-Day7 Anatomical regions Atrial CMs Ventricular CMs Inflamed CMs S ln M yl 4 M yl 7 N pp a M yl 1 F ab p3 M yl 2 M yl 3 P ln M b B 2m Is g1 5 Ir gm 1 Iig p1 Ig tp Ventricular CMs Atrial CMs Inflamed CMs Mock-Day4 Infected-Day4 Mock-Day7 Infected-Day7 Mock-Day10 Infected-Day10 Fraction of cells (%) –5 0 5 log fold change 20 40 60 10080 d e f 2,059 7528 Inflamed myocyte markers Border zone myocyte markers Border zone markers Myocyte subtypes Condition Inflamed atria Inflamed ventricle Myocarditic region Border zone Outflow tract Chamber cavity Timp1 0 2 AW112010 0 1 Clu 0 2 Ankrd1 0 2.5 Gm4841 0 2 Ctss 0 1 Gm4841 UMAP1 U M A P 2 UMAP1 U M A P 2 0 2 Mt1 0 5 Mt2 0 2 Ankrd1 0 5 Nppb 0 5 Gm12185 0 2 h iClu Nppa Low High 0.3 mm 0.5 mm g CardiacSlide-seqclusters Cardiomyocytes-1 Cardiomyocytes-2 Border zone cardiomyocytes T cells Dendritic cells Fibroblasts Cxcl9-high endothelial cells Neutrophils Erythroblasts Mock Infected 500 μm 500 μm T nn t2 C lu N pp a Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes upregulated in the border zone around the myocarditic regions (left). .. UMAP plot showing the expression of myocyte-specific genes that are upregulated in the border zone of myocarditic regions (right). g, High-resolution Slide-seq spatial transcriptomics map of cardiac ventricular tissue from reovirus infected mice at 7 dpi colored by Slide-seq bead clusters. ..



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    high resolution slide seq spatial transcriptomics map  (Spatial Transcriptomics Inc)
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    Spatial Transcriptomics Inc high resolution slide seq spatial transcriptomics map
    Fig. 1 | Single-cell and spatial <t>transcriptomics</t> of cardiac and ileum tissue of reovirus-infected neonatal mice. a, Experiment and analysis workflow. Four- day-old neonatal mice weighing 3 g per pup were infected (per os) with reovirus T1L. Neonatal mice infected with 1× PBS were used as mock controls. Ileum tissue (1 dpi and 4 dpi) and heart tissues (4 dpi, 7 dpi and 10 dpi) were assayed and used for scRNA-seq and spatial transcriptomics. b, UMAP plot of 31,684 single-cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi (one animal per condition), clustered by gene expression and colored by cell type (left). UMAP plots showing cardiac cell type clusters across samples for the heart scRNA-seq data (right). c, 8,243 spatial transcriptomes of cardiac tissue sections from mock-infected and reovirus-infected mice at 4 dpi and 7 dpi (one animal per condition). H&E-stained image of reovirus-infected myocarditic
    High Resolution Slide Seq Spatial Transcriptomics Map, 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/product/high+resolution+slide+seq+spatial+transcriptomics+map/seq+slide/pm36970396-158-20-22
    Average 86 stars, based on 1 article reviews
    high resolution slide seq spatial transcriptomics map - by Bioz Stars, 2026-09
    86/100 stars
    		  Buy from Supplier

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    Fig. 1 | Single-cell and spatial transcriptomics of cardiac and ileum tissue of reovirus-infected neonatal mice. a, Experiment and analysis workflow. Four- day-old neonatal mice weighing 3 g per pup were infected (per os) with reovirus T1L. Neonatal mice infected with 1× PBS were used as mock controls. Ileum tissue (1 dpi and 4 dpi) and heart tissues (4 dpi, 7 dpi and 10 dpi) were assayed and used for scRNA-seq and spatial transcriptomics. b, UMAP plot of 31,684 single-cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi (one animal per condition), clustered by gene expression and colored by cell type (left). UMAP plots showing cardiac cell type clusters across samples for the heart scRNA-seq data (right). c, 8,243 spatial transcriptomes of cardiac tissue sections from mock-infected and reovirus-infected mice at 4 dpi and 7 dpi (one animal per condition). H&E-stained image of reovirus-infected myocarditic

    Journal: Nature cardiovascular research

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.

    doi: 10.1038/s44161-022-00138-1

    Figure Lengend Snippet: Fig. 1 | Single-cell and spatial transcriptomics of cardiac and ileum tissue of reovirus-infected neonatal mice. a, Experiment and analysis workflow. Four- day-old neonatal mice weighing 3 g per pup were infected (per os) with reovirus T1L. Neonatal mice infected with 1× PBS were used as mock controls. Ileum tissue (1 dpi and 4 dpi) and heart tissues (4 dpi, 7 dpi and 10 dpi) were assayed and used for scRNA-seq and spatial transcriptomics. b, UMAP plot of 31,684 single-cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi (one animal per condition), clustered by gene expression and colored by cell type (left). UMAP plots showing cardiac cell type clusters across samples for the heart scRNA-seq data (right). c, 8,243 spatial transcriptomes of cardiac tissue sections from mock-infected and reovirus-infected mice at 4 dpi and 7 dpi (one animal per condition). H&E-stained image of reovirus-infected myocarditic

    Article Snippet: UMAP plot showing the expression of myocyte-specific genes that are upregulated in the border zone of myocarditic regions (right). g, High-resolution Slide-seq spatial transcriptomics map of cardiac ventricular tissue from reovirus infected mice at 7 dpi colored by Slide-seq bead clusters.

    Techniques: Infection, Gene Expression, Staining

    Fig. 3 | Cytotoxic T cells recruited by inflamed endothelial cells induce pyroptosis in myocarditic tissue. a, UMAP plot of 9,786 single-cell endothelial cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by endothelial cell subtype clusters (phenotypes) (top) and condition (bottom). b, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for endothelial cell subtypes. c, UMAP plot showing the expression of genes upregulated in Cxcl9-high endothelial cells. d, Spatial transcriptomic maps of cardiac tissue from reovirus infected hearts at 7 dpi showing gene module scores calculated for four GO terms enriched in Cxcl9-high endothelial cells. e, UMAP plot of 2,205 single-cell T cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by T cell subtype clusters (top) and condition (bottom). f, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for T cell subtypes. g, UMAP plot showing the expression of genes upregulated in cytotoxic T cells from myocarditic heart at 7 dpi. h, Spatial transcriptomics maps of cardiac tissue from reovirus infected hearts at 7 dpi

    Journal: Nature cardiovascular research

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.

    doi: 10.1038/s44161-022-00138-1

    Figure Lengend Snippet: Fig. 3 | Cytotoxic T cells recruited by inflamed endothelial cells induce pyroptosis in myocarditic tissue. a, UMAP plot of 9,786 single-cell endothelial cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by endothelial cell subtype clusters (phenotypes) (top) and condition (bottom). b, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for endothelial cell subtypes. c, UMAP plot showing the expression of genes upregulated in Cxcl9-high endothelial cells. d, Spatial transcriptomic maps of cardiac tissue from reovirus infected hearts at 7 dpi showing gene module scores calculated for four GO terms enriched in Cxcl9-high endothelial cells. e, UMAP plot of 2,205 single-cell T cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by T cell subtype clusters (top) and condition (bottom). f, Heat map showing top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for T cell subtypes. g, UMAP plot showing the expression of genes upregulated in cytotoxic T cells from myocarditic heart at 7 dpi. h, Spatial transcriptomics maps of cardiac tissue from reovirus infected hearts at 7 dpi

    Article Snippet: UMAP plot showing the expression of myocyte-specific genes that are upregulated in the border zone of myocarditic regions (right). g, High-resolution Slide-seq spatial transcriptomics map of cardiac ventricular tissue from reovirus infected mice at 7 dpi colored by Slide-seq bead clusters.

    Techniques: Infection, Expressing

    Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes

    Journal: Nature cardiovascular research

    Article Title: Spatiotemporal transcriptomics reveals pathogenesis of viral myocarditis.

    doi: 10.1038/s44161-022-00138-1

    Figure Lengend Snippet: Fig. 4 | Myocarditic regions and the border zone have distinct transcriptomic profiles and cell-type-specific signatures. a, Spatial transcriptomics map of cardiac tissue section from reovirus-infected mice at 7 dpi colored by spot clusters representing transcriptionally distinct tissue regions. b, Spatial transcriptomics maps of cardiac tissue sections from reovirus-infected mice at 7 dpi showing the expression of differentially expressed genes of interest in the myocarditic and the border zone. c, Changes in average predicted cell type proportions across the infected ventricle, for cell types enriched in the myocarditic region and the border zone. d, UMAP plot of 502 single-cell cardiomyocyte cell transcriptomes from mock-infected and reovirus-infected hearts at 4 dpi, 7 dpi and 10 dpi colored by myocyte cell subtype (phenotypes) (left) and condition (right). e, Heat map showing the top five differentially expressed genes (two-sided Wilcoxon test, log fold change > 1.0 and P < 0.01) for cardiomyocyte cell subtypes. f, Venn diagram showing myocyte-specific genes

    Article Snippet: UMAP plot showing the expression of myocyte-specific genes that are upregulated in the border zone of myocarditic regions (right). g, High-resolution Slide-seq spatial transcriptomics map of cardiac ventricular tissue from reovirus infected mice at 7 dpi colored by Slide-seq bead clusters.

    Techniques: Infection, Expressing