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star-finder single cell and spatial transcriptomics data portal  (Spatial Transcriptomics Inc)

 
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    Spatial Transcriptomics Inc star-finder single cell and spatial transcriptomics data portal

    Star Finder Single Cell And Spatial Transcriptomics Data Portal, supplied by Spatial Transcriptomics Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/single-cell+spatial+transcriptomics+data/spatial+transcriptomics+sequencing/pmc07864098-111-0-4
    Average 90 stars, based on 1 article reviews
    star-finder single cell and spatial transcriptomics data portal - by Bioz Stars, 2026-10
    90/100 stars

    Images

    1) Product Images from "Spatiotemporal analysis of human intestinal development at single-cell resolution"

    Article Title: Spatiotemporal analysis of human intestinal development at single-cell resolution

    Journal: Cell

    doi: 10.1016/j.cell.2020.12.016


    Figure Legend Snippet:

    Techniques Used: Conjugation Assay, Recombinant, Saline, Modification, Plasmid Preparation, Gene Expression, RNAscope, Generated, Software

    Related Articles

    Spatial Transcriptomics:

    Article Title: Single-cell transcriptome sequencing reveals new epithelial-stromal associated mesenchymal-like subsets in recurrent gliomas.
    Article Snippet: .. Spatial transcriptomics sequencing data was obtained from previous studies and is now publicly available (GSE194329) [19]. ..

    Article Title: Single-cell and spatial transcriptome analyses reveal MAZ(+) NPC-like clusters as key role contributing to glioma recurrence and drug resistance.
    Article Snippet: .. In response, the methods based on single-cell and spatial transcriptomics sequencing technology provide researchers with effective tools that allow them to delve deeper into the cellular composition of tumors and dynamic changes [8]. ..

    Article Title: Single-cell transcriptome sequencing reveals new epithelial-stromal associated mesenchymal-like subsets in recurrent gliomas
    Article Snippet: .. Spatial transcriptomics sequencing data was obtained from previous studies and is now publicly available ( GSE194329 ) [ ]. ..

    Article Title: Mevalonate pathway promotes liver cancer by suppressing ferroptosis through CoQ10 production and selenocysteine-tRNA modification.
    Article Snippet: .. Spatial transcriptomics (SpatialTME) further confirmed pathway activation (Fig. 1J) 15. ..

    Sequencing:

    Article Title: Single-cell transcriptome sequencing reveals new epithelial-stromal associated mesenchymal-like subsets in recurrent gliomas.
    Article Snippet: .. Spatial transcriptomics sequencing data was obtained from previous studies and is now publicly available (GSE194329) [19]. ..

    Article Title: Single-cell and spatial transcriptome analyses reveal MAZ(+) NPC-like clusters as key role contributing to glioma recurrence and drug resistance.
    Article Snippet: .. In response, the methods based on single-cell and spatial transcriptomics sequencing technology provide researchers with effective tools that allow them to delve deeper into the cellular composition of tumors and dynamic changes [8]. ..

    Article Title: Single-cell transcriptome sequencing reveals new epithelial-stromal associated mesenchymal-like subsets in recurrent gliomas
    Article Snippet: .. Spatial transcriptomics sequencing data was obtained from previous studies and is now publicly available ( GSE194329 ) [ ]. ..

    Single Cell:

    Article Title: Single-cell and spatial transcriptome analyses reveal MAZ(+) NPC-like clusters as key role contributing to glioma recurrence and drug resistance.
    Article Snippet: .. In response, the methods based on single-cell and spatial transcriptomics sequencing technology provide researchers with effective tools that allow them to delve deeper into the cellular composition of tumors and dynamic changes [8]. ..

    other:

    Article Title: Spatial transcriptomic analysis of 4NQO-induced tongue cancer revealed cellular lineage diversity and evolutionary trajectory
    Article Snippet: Spatial transcriptomics (ST-seq) can also target the epithelium, providing insight into the evolutionary trajectory during the development and progression of tongue epithelial cells.

    Article Title: Spatial transcriptomics and multi-omics reveal relapse and resistance mechanisms of EndMT-derived CAFs mediated by TNC and FLNC in glioblastoma.
    Article Snippet: Spatial transcriptomics (ST) sequencing was performed, and then samples were subjected to hematoxylin and eosin (H&E) staining and tissue permeabilization.

    Article Title: SOAR elucidates biological insights and empowers drug discovery through spatial transcriptomics.
    Article Snippet: We present Spatial transcriptOmics Analysis Resource (SOAR), a comprehensive spatial transcriptomics platform with 3461 uniformly processed samples across 13 species, 42 tissue types, and 19 different spatial transcriptomics technologies.

    Article Title: CXCL12/CXCR4 axis governs Treg spatial dominance over CD8+ T cells via IL-2 sequestration: a dual therapeutic target in prostate cancer
    Article Snippet: The advent of high-throughput spatial transcriptomics technology introduces a novel dimension by providing insights into the spatial architecture and physical proximity of elements within the TIME, offering a transformative perspective on tumor immunology and therapeutic responses ( ).

    Activation Assay:

    Article Title: Mevalonate pathway promotes liver cancer by suppressing ferroptosis through CoQ10 production and selenocysteine-tRNA modification.
    Article Snippet: .. Spatial transcriptomics (SpatialTME) further confirmed pathway activation (Fig. 1J) 15. ..



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    Image Search Results


    (a) Simplified cross-section of the human epidermis, highlighting squamous cells, melanocytes and basal cells. Coloured regions represent cSCC (green), which originates from squamous cells, melanoma (orange), which originates from melanocytes, and BCC (blue), which originates from basal cells. Two orange melanocytes are shown in the dermal region as occurs in invasive melanoma; other cells in the lower dermis layer are not depicted. (b) Overview of sample design and technologies used to generate data for this project. ROI - region of interest; FOV - field of view; S - cSCC; B - BCC; M - melanoma; HC - healthy (cancer patient); HNC - healthy (non-cancer patient donor). Technologies included are single cell RNA sequencing for fresh samples, single nuclei sequencing for formalin-fixed samples, Visium, Xenium, CosMX, GeoMX DSP for whole transcriptome, GeoMX DSP for proteins, Polaris, RNAscope, the proximal ligation assay, spatial glycomics and CODEX.

    Journal: bioRxiv

    Article Title: Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types

    doi: 10.1101/2025.07.25.666708

    Figure Lengend Snippet: (a) Simplified cross-section of the human epidermis, highlighting squamous cells, melanocytes and basal cells. Coloured regions represent cSCC (green), which originates from squamous cells, melanoma (orange), which originates from melanocytes, and BCC (blue), which originates from basal cells. Two orange melanocytes are shown in the dermal region as occurs in invasive melanoma; other cells in the lower dermis layer are not depicted. (b) Overview of sample design and technologies used to generate data for this project. ROI - region of interest; FOV - field of view; S - cSCC; B - BCC; M - melanoma; HC - healthy (cancer patient); HNC - healthy (non-cancer patient donor). Technologies included are single cell RNA sequencing for fresh samples, single nuclei sequencing for formalin-fixed samples, Visium, Xenium, CosMX, GeoMX DSP for whole transcriptome, GeoMX DSP for proteins, Polaris, RNAscope, the proximal ligation assay, spatial glycomics and CODEX.

    Article Snippet: Cells expressing the two genes are visualized on single-cell level resolution spatial data from STOmics and Curio-Seeker (Takara Bio, USA) melanoma samples and appear to be in spatial proximity ( ).

    Techniques: RNA Sequencing, Sequencing, RNAscope, Ligation

    (a) Gene specificity score (GSS) and association of spatial spots with skin cancer heritability. GSS score for each gene in a spot/cell represents the enrichment of the gene as a top rank most abundant gene in the spot/cell and its neighbour spots/cells in an anatomical region, a spatial domain, or a cell type. The p-value shows the spatial heritability enrichment significance of a spot with a trait based on SNPs mapped to the genes with high GSS scores (one-sided Z-test for stratified coefficient different to 0). The p-value is more significant if the SNPs that are mapped to the high GSS genes explain a higher proportion of heritability for the trait. (b) Cell types with the highest enrichment of heritability explained by SNPs tagged to GSS genes of cells in a cell type. The white asterisks indicate the most enriched cell-type for heritability of cutaneous melanoma, cSCC and BCC traits. (c) gsMAP significance spatial heritability enrichment is shown at single-cell resolution across the tissue (upper tissue plots) or per annotated skin regions (lower violin plots) from the cosMx data of the sample mel48974. (d) LR pairs with significant association with SNP heritability explained by the corresponding cell types. The rectangles show cases where both L and R genes had PCC >0.3 between GSS of the gene and the gsMAP P-values (the significance level for the LD stratified coefficients for the spot bigger than 0). The results suggest which LR pairs are related with the heritability of a cell type pairs. (e) GSS of two LR pairs showing specificity of the L and R genes to tissue regions at the immune-rich dermal layers and the epidermis of the skin. (f) Manhattan plot showing top significant GWAS SNPs co-localizing with genes in melanocytes (red) and T cells (blue) that had the highest Pearson correlation between GSS and the gsMAP trait association P-value or associated with SNPs with genome-wide significance. The Y-axis shows the -log(P-value) from GWAS analysis.

    Journal: bioRxiv

    Article Title: Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types

    doi: 10.1101/2025.07.25.666708

    Figure Lengend Snippet: (a) Gene specificity score (GSS) and association of spatial spots with skin cancer heritability. GSS score for each gene in a spot/cell represents the enrichment of the gene as a top rank most abundant gene in the spot/cell and its neighbour spots/cells in an anatomical region, a spatial domain, or a cell type. The p-value shows the spatial heritability enrichment significance of a spot with a trait based on SNPs mapped to the genes with high GSS scores (one-sided Z-test for stratified coefficient different to 0). The p-value is more significant if the SNPs that are mapped to the high GSS genes explain a higher proportion of heritability for the trait. (b) Cell types with the highest enrichment of heritability explained by SNPs tagged to GSS genes of cells in a cell type. The white asterisks indicate the most enriched cell-type for heritability of cutaneous melanoma, cSCC and BCC traits. (c) gsMAP significance spatial heritability enrichment is shown at single-cell resolution across the tissue (upper tissue plots) or per annotated skin regions (lower violin plots) from the cosMx data of the sample mel48974. (d) LR pairs with significant association with SNP heritability explained by the corresponding cell types. The rectangles show cases where both L and R genes had PCC >0.3 between GSS of the gene and the gsMAP P-values (the significance level for the LD stratified coefficients for the spot bigger than 0). The results suggest which LR pairs are related with the heritability of a cell type pairs. (e) GSS of two LR pairs showing specificity of the L and R genes to tissue regions at the immune-rich dermal layers and the epidermis of the skin. (f) Manhattan plot showing top significant GWAS SNPs co-localizing with genes in melanocytes (red) and T cells (blue) that had the highest Pearson correlation between GSS and the gsMAP trait association P-value or associated with SNPs with genome-wide significance. The Y-axis shows the -log(P-value) from GWAS analysis.

    Article Snippet: Cells expressing the two genes are visualized on single-cell level resolution spatial data from STOmics and Curio-Seeker (Takara Bio, USA) melanoma samples and appear to be in spatial proximity ( ).

    Techniques: Genome Wide

    Journal: Cell

    Article Title: Spatiotemporal analysis of human intestinal development at single-cell resolution

    doi: 10.1016/j.cell.2020.12.016

    Figure Lengend Snippet:

    Article Snippet: STAR-FINDer Single Cell and Spatial Transcriptomics Data Portal , This study , https://simmonslab.shinyapps.io/FetalAtlasDataPortal.

    Techniques: Conjugation Assay, Recombinant, Saline, Modification, Plasmid Preparation, Gene Expression, RNAscope, Generated, Software