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slide seqv2  (Spatial Transcriptomics Inc)

 
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    Spatial Transcriptomics Inc slide seqv2
    Slide Seqv2, 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/pm33288904-34-8-18
    Average 86 stars, based on 1 article reviews
    slide seqv2 - by Bioz Stars, 2026-09
    86/100 stars

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    Related Articles

    Spatial Transcriptomics:

    Article Title: Mechanobiological Specialization of Choroid Plexus Macrophages Defined by Titin Expression
    Article Snippet: .. Spatial transcriptomics using slide-seq on ChP from 4 donors with AD, with integration of our snRNA-seq data via GIMVI , revealed extensive local vascular-immune and epithelial–immune interaction within the ChP folds and demonstrated that TTN + macrophages occupy distinct microenvironments enriched for endothelial and immune interfaces ( ). ..

    Article Title: SPOmiAlign: A modality-agnostic framework for robust and scalable spatial multimodal alignment via feature matching
    Article Snippet: .. The Slide-seq dataset, a high-throughput sequencing-based spatial transcriptomics technology with near-cellular resolution comprising 101 adult mouse brain coronal sections that span the entire anteroposterior axis, was obtained from an online resource at https://docs.braincelldata.org/downloads/index.html/Slide-seq_Data . .. The MERFISH dataset, a high-throughput imaging-based spatial transcriptomics technology with single-cell resolution consisting of 25 adult mouse brain sagittal sections, was obtained from the Allen Brain Cell Atlas at https://alleninstitute.github.io/abc_atlas_access/descriptions/Zhuang-ABCA-3.html .

    Article Title: Hidden network preserved in Slide-tags data allows reference-free spatial reconstruction.
    Article Snippet: .. Hidden network preserved in Slide-tags data allows reference-free spatial reconstruction Simon K. Dahlberg , David Fernández Bonet , Lovisa Franzén , Patrik L. Ståhl & Ian T. Hoffecker Spatial transcriptomics technologies aim to spatially map gene expression in tissues and typically use oligonucleotide array surfaces that have undergone spatial indexing. ..

    Article Title: Gut microbiota-derived metabolites in keloid and hypertrophic scarring
    Article Snippet: .. Spatial transcriptomics platforms, such as Slide-seq2 and spatial host–microbe sequencing (SHM-seq), enable in situ mapping of gene expression, microbial localization, and immune interactions at near-cellular resolution. ..

    other:

    Article Title: Metabolic zonation and characterization of tissue slices with spatial transcriptomics
    Article Snippet: To run Harreman effectively and scale it to data sizes characteristic of state-of-the-art spatial transcriptomics technologies such as Slide-seq [ ], we made it PyTorch-friendly, which led us to the subsequent optimization of the Hotspot algorithm using the same infrastructure.

    Article Title: A temporal and spatial atlas of adaptive immune responses in the lymph node following viral infection.
    Article Snippet: Slide-Seq Spatial Transcriptomics Library Preparation and Sequencing.

    Sequencing:

    Article Title: SPOmiAlign: A modality-agnostic framework for robust and scalable spatial multimodal alignment via feature matching
    Article Snippet: .. The Slide-seq dataset, a high-throughput sequencing-based spatial transcriptomics technology with near-cellular resolution comprising 101 adult mouse brain coronal sections that span the entire anteroposterior axis, was obtained from an online resource at https://docs.braincelldata.org/downloads/index.html/Slide-seq_Data . .. The MERFISH dataset, a high-throughput imaging-based spatial transcriptomics technology with single-cell resolution consisting of 25 adult mouse brain sagittal sections, was obtained from the Allen Brain Cell Atlas at https://alleninstitute.github.io/abc_atlas_access/descriptions/Zhuang-ABCA-3.html .

    Article Title: Gut microbiota-derived metabolites in keloid and hypertrophic scarring
    Article Snippet: .. Spatial transcriptomics platforms, such as Slide-seq2 and spatial host–microbe sequencing (SHM-seq), enable in situ mapping of gene expression, microbial localization, and immune interactions at near-cellular resolution. ..

    Gene Expression:

    Article Title: Hidden network preserved in Slide-tags data allows reference-free spatial reconstruction.
    Article Snippet: .. Hidden network preserved in Slide-tags data allows reference-free spatial reconstruction Simon K. Dahlberg , David Fernández Bonet , Lovisa Franzén , Patrik L. Ståhl & Ian T. Hoffecker Spatial transcriptomics technologies aim to spatially map gene expression in tissues and typically use oligonucleotide array surfaces that have undergone spatial indexing. ..

    Article Title: Gut microbiota-derived metabolites in keloid and hypertrophic scarring
    Article Snippet: .. Spatial transcriptomics platforms, such as Slide-seq2 and spatial host–microbe sequencing (SHM-seq), enable in situ mapping of gene expression, microbial localization, and immune interactions at near-cellular resolution. ..

    Article Title: Understanding and Advancing Wound Healing in the Era of Multi-Omic Technology.
    Article Snippet: .. Spatial transcriptomics platforms such as 10× Visium, Slide-seq, and Multiplexed error-robust fluorescence in situ hybridization (MERFISH) preserve tissue architecture while capturing spatially resolved gene expression profiles, enabling the identification of spatial gradients in inflammatory signaling, revascularization, and epidermal regeneration [66,67]. ..

    In Situ:

    Article Title: Gut microbiota-derived metabolites in keloid and hypertrophic scarring
    Article Snippet: .. Spatial transcriptomics platforms, such as Slide-seq2 and spatial host–microbe sequencing (SHM-seq), enable in situ mapping of gene expression, microbial localization, and immune interactions at near-cellular resolution. ..

    Fluorescence:

    Article Title: Understanding and Advancing Wound Healing in the Era of Multi-Omic Technology.
    Article Snippet: .. Spatial transcriptomics platforms such as 10× Visium, Slide-seq, and Multiplexed error-robust fluorescence in situ hybridization (MERFISH) preserve tissue architecture while capturing spatially resolved gene expression profiles, enabling the identification of spatial gradients in inflammatory signaling, revascularization, and epidermal regeneration [66,67]. ..

    In Situ Hybridization:

    Article Title: Understanding and Advancing Wound Healing in the Era of Multi-Omic Technology.
    Article Snippet: .. Spatial transcriptomics platforms such as 10× Visium, Slide-seq, and Multiplexed error-robust fluorescence in situ hybridization (MERFISH) preserve tissue architecture while capturing spatially resolved gene expression profiles, enabling the identification of spatial gradients in inflammatory signaling, revascularization, and epidermal regeneration [66,67]. ..



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    high resolution slide seq spatial transcriptomics map  (Spatial Transcriptomics Inc)
    86
    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