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spatial transcriptomics st slides  (Spatial Transcriptomics Inc)

 
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    Spatial Transcriptomics Inc spatial transcriptomics st slides
    Spatial Transcriptomics St Slides, 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/spatial+transcriptomic+(st)+dataset/slides+spatial+st+transcriptomics/pmc12591104-242-0-0
    Average 86 stars, based on 1 article reviews
    spatial transcriptomics st slides - by Bioz Stars, 2026-10
    86/100 stars

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    Related Articles

    Spatial Transcriptomics:

    Article Title: Targeting fibroblast derived thrombospondin 2 disrupts an immune-exclusionary environment at the tumor front in colorectal cancer
    Article Snippet: .. Spatial Transcriptomics (ST) slides were made from FFPE blocks of surgically resected CRC specimens which were determined as CMS1/MSI, CMS2, or CMS4 by using RNA-seq data (for Visium) or staining (for Xenium) based on previous reports . .. Visium ST analysis was performed by Takara Bio, Japan.

    Article Title: CD81 + senescent-like fibroblasts exaggerate inflammation and activate neutrophils via C3/C3aR1 axis in periodontitis
    Article Snippet: .. Spatial transcriptomics slides were printed with two identical capture areas from one healthy sample and one periodontitis sample ( ). ..

    Article Title: Globotriaosylceramide Gb3 Influences Wound Healing and Scar Formation by Orchestrating Fibroblast Heterogeneity
    Article Snippet: [ ] The graphic flow diagram as well as the scientific hypothesis picture, were generated using Biorender ( https://biorender.com/ ). .. Spatial transcriptomics (ST) slides were captured from 2 SDB patients for the investigation of gene expression profiles. .. The overall procedure was conducted by the Visium Spatial platform of 10x Genomics ( https://www.10xgenomics.com/platforms/visium ).

    Formalin-fixed Paraffin-Embedded:

    Article Title: Targeting fibroblast derived thrombospondin 2 disrupts an immune-exclusionary environment at the tumor front in colorectal cancer
    Article Snippet: .. Spatial Transcriptomics (ST) slides were made from FFPE blocks of surgically resected CRC specimens which were determined as CMS1/MSI, CMS2, or CMS4 by using RNA-seq data (for Visium) or staining (for Xenium) based on previous reports . .. Visium ST analysis was performed by Takara Bio, Japan.

    RNA Sequencing:

    Article Title: Targeting fibroblast derived thrombospondin 2 disrupts an immune-exclusionary environment at the tumor front in colorectal cancer
    Article Snippet: .. Spatial Transcriptomics (ST) slides were made from FFPE blocks of surgically resected CRC specimens which were determined as CMS1/MSI, CMS2, or CMS4 by using RNA-seq data (for Visium) or staining (for Xenium) based on previous reports . .. Visium ST analysis was performed by Takara Bio, Japan.

    Staining:

    Article Title: Targeting fibroblast derived thrombospondin 2 disrupts an immune-exclusionary environment at the tumor front in colorectal cancer
    Article Snippet: .. Spatial Transcriptomics (ST) slides were made from FFPE blocks of surgically resected CRC specimens which were determined as CMS1/MSI, CMS2, or CMS4 by using RNA-seq data (for Visium) or staining (for Xenium) based on previous reports . .. Visium ST analysis was performed by Takara Bio, Japan.

    Gene Expression:

    Article Title: Globotriaosylceramide Gb3 Influences Wound Healing and Scar Formation by Orchestrating Fibroblast Heterogeneity
    Article Snippet: [ ] The graphic flow diagram as well as the scientific hypothesis picture, were generated using Biorender ( https://biorender.com/ ). .. Spatial transcriptomics (ST) slides were captured from 2 SDB patients for the investigation of gene expression profiles. .. The overall procedure was conducted by the Visium Spatial platform of 10x Genomics ( https://www.10xgenomics.com/platforms/visium ).



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    Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial <t>transcriptome</t> displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.
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    Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial <t>transcriptome</t> displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.
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    Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial transcriptome displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.

    Journal: Discover Oncology

    Article Title: Characterization of cuproptosis signature in clear cell renal cell carcinoma by single cell and spatial transcriptome analysis

    doi: 10.1007/s12672-024-01162-2

    Figure Lengend Snippet: Transcription programs of ccRCC cells in response to cuproptosis. A UMAP showing the 10 subtypes of 26,981 Epithelial cells; B heatmap showing inferred CNV of scRNA-seq dataset; C dot plot of the relative cellular proportions of Epithelial subtypes in each group; D GSEA analysis revealed the activated CRGs enriched in Normal Epithelial cells; E violin plot showing the relative CRGs score in each cancer subtype; F survival plot of HILPDA + ccRCC1 signature high and low group in the KIRC samples; G violin plots of HILPDA expression levels and hypoxia scores in each cancer subtypes; H spatial transcriptome displayed the distribution of CRGs, HILPDA + ccRCC1 signatures, hypoxia scores and HILPDA expression; I the regulon specificity scores of TFs in HILPDA + ccRCC1 subtype. The top 5 TFs ordered by scores were listed; J violin plot showing the expression levels of the top 5 TFs in HILPDA + ccRCC1 subtype across stage I–IV.

    Article Snippet: The spatial transcriptome sequencing (ST-seq) dataset was obtained from Mendeley Data platform ( https://data.mendeley.com/datasets/g67bkbnhhg/1 ) and input to python environment.

    Techniques: Expressing

    Dissection of immunosuppressive cells of cuproptosis-related tumor microenvironment. A UMAP showing the 16 subtypes of 99,210 Immune cells; B violin plot of the relative expression levels of the canocial markers in each subtype; C heatmap showing the enrichment of immune checkpoint and suppressive genes; D spatial transcriptome displayed the distribution of Treg, CD8_Exhausted and TAM signature scores; E heatmap showing the four gene expression patterns deduced by TDEseq analysis; F violin plots showing the relative expression levels of CRG scores in the immunosuppressive cells across different stages; G Chord diagram showing the number of interactions among the four subtypes; H Bubble plot showing the ligand-receptor pairs in the main subtype; I Heatmap showing the relative expression levels of key genes of the four subtypes among the different stages. The paired ligand-receptor shown in H were connected by lines.

    Journal: Discover Oncology

    Article Title: Characterization of cuproptosis signature in clear cell renal cell carcinoma by single cell and spatial transcriptome analysis

    doi: 10.1007/s12672-024-01162-2

    Figure Lengend Snippet: Dissection of immunosuppressive cells of cuproptosis-related tumor microenvironment. A UMAP showing the 16 subtypes of 99,210 Immune cells; B violin plot of the relative expression levels of the canocial markers in each subtype; C heatmap showing the enrichment of immune checkpoint and suppressive genes; D spatial transcriptome displayed the distribution of Treg, CD8_Exhausted and TAM signature scores; E heatmap showing the four gene expression patterns deduced by TDEseq analysis; F violin plots showing the relative expression levels of CRG scores in the immunosuppressive cells across different stages; G Chord diagram showing the number of interactions among the four subtypes; H Bubble plot showing the ligand-receptor pairs in the main subtype; I Heatmap showing the relative expression levels of key genes of the four subtypes among the different stages. The paired ligand-receptor shown in H were connected by lines.

    Article Snippet: The spatial transcriptome sequencing (ST-seq) dataset was obtained from Mendeley Data platform ( https://data.mendeley.com/datasets/g67bkbnhhg/1 ) and input to python environment.

    Techniques: Dissection, Expressing, Gene Expression