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stereo microscope  (Nikon)


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    Nikon stereo microscope
    Histology‐based nevus and melanoma classification is confirmed by the expression levels of molecular marker genes. (A–F) Representative morphology of dissected skin samples under stereo <t>microscope.</t> For each category, two frogs were biopsied and similar morphology was observed. (A) Ventral skin sample from a 19‐month‐old wild‐type frog; (B) ventral skin sample from a 19‐month‐old tp53 Δ7/Δ7 frog without nevus/melanoma lesions; (C–E) ventral skin samples from 19‐month‐old tp53 Δ7/Δ7 frogs with benign nevus, dysplastic nevus, and melanoma in situ , respectively; (F) ventral skin sample from a 25‐month‐old tp53 Δ7/Δ7 frog with an invasive melanoma. Scale bars, 100 μm. (G–L) Representative histological structures (H&E staining) of samples shown in A–F, respectively. Similar structures were observed in 10 serial sections from each sample. Scale bars, 50 μm. (M) RT‐PCR analyses revealed the transcriptional expression levels of genes indicated on the right side in different samples listed on the top. gapdh was used as an RNA loading control. Identical results were obtained in two independent RT‐PCR experiments.
    Stereo Microscope, supplied by Nikon, used in various techniques. Bioz Stars score: 96/100, based on 1953 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/stereo+seq+spatial+transcriptomics+data/pmc09533689-111-8-11?v=Nikon
    Average 96 stars, based on 1953 article reviews
    stereo microscope - by Bioz Stars, 2026-08
    96/100 stars

    Images

    1) Product Images from "Disruption of tp53 leads to cutaneous nevus and melanoma formation in Xenopus tropicalis"

    Article Title: Disruption of tp53 leads to cutaneous nevus and melanoma formation in Xenopus tropicalis

    Journal: Molecular Oncology

    doi: 10.1002/1878-0261.13301

    Histology‐based nevus and melanoma classification is confirmed by the expression levels of molecular marker genes. (A–F) Representative morphology of dissected skin samples under stereo microscope. For each category, two frogs were biopsied and similar morphology was observed. (A) Ventral skin sample from a 19‐month‐old wild‐type frog; (B) ventral skin sample from a 19‐month‐old tp53 Δ7/Δ7 frog without nevus/melanoma lesions; (C–E) ventral skin samples from 19‐month‐old tp53 Δ7/Δ7 frogs with benign nevus, dysplastic nevus, and melanoma in situ , respectively; (F) ventral skin sample from a 25‐month‐old tp53 Δ7/Δ7 frog with an invasive melanoma. Scale bars, 100 μm. (G–L) Representative histological structures (H&E staining) of samples shown in A–F, respectively. Similar structures were observed in 10 serial sections from each sample. Scale bars, 50 μm. (M) RT‐PCR analyses revealed the transcriptional expression levels of genes indicated on the right side in different samples listed on the top. gapdh was used as an RNA loading control. Identical results were obtained in two independent RT‐PCR experiments.
    Figure Legend Snippet: Histology‐based nevus and melanoma classification is confirmed by the expression levels of molecular marker genes. (A–F) Representative morphology of dissected skin samples under stereo microscope. For each category, two frogs were biopsied and similar morphology was observed. (A) Ventral skin sample from a 19‐month‐old wild‐type frog; (B) ventral skin sample from a 19‐month‐old tp53 Δ7/Δ7 frog without nevus/melanoma lesions; (C–E) ventral skin samples from 19‐month‐old tp53 Δ7/Δ7 frogs with benign nevus, dysplastic nevus, and melanoma in situ , respectively; (F) ventral skin sample from a 25‐month‐old tp53 Δ7/Δ7 frog with an invasive melanoma. Scale bars, 100 μm. (G–L) Representative histological structures (H&E staining) of samples shown in A–F, respectively. Similar structures were observed in 10 serial sections from each sample. Scale bars, 50 μm. (M) RT‐PCR analyses revealed the transcriptional expression levels of genes indicated on the right side in different samples listed on the top. gapdh was used as an RNA loading control. Identical results were obtained in two independent RT‐PCR experiments.

    Techniques Used: Expressing, Marker, Microscopy, In Situ, Staining, Reverse Transcription Polymerase Chain Reaction, Control



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    (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 <t>single</t> <t>cell</t> 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.
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    Image Search Results


    Single-nucleus transcriptome and spatial transcriptomics landscape of the ileal tissue of SAP and CON group rats. (A) Schematic illustration of the workflow for this study. (B) Representative Hematoxylin and Eosin (H&E)–stained ileal sections from CON and SAP rats. (C) UMAP plot of single-nucleus transcriptome profiles of SAP and CON group samples. Colors indicate groups, clusters and cell types. (D) Heatmap plot of marker genes for cell annotation. (E) Bar plot showing cell-type proportions (mean ± SEM) in snRNA-seq data. (F) Spatial transcriptomics profiles of SAP and CON group samples. Colors indicate cell types. (G) Bar plot showing cell-type proportions (mean ± SEM) in spatial transcriptomics (Stereo-seq) data. Statistical significance: ns, not significant; *P < 0.05; **P < 0.01; ***P < 0.001; ****P < 0.0001.

    Journal: Frontiers in Immunology

    Article Title: Single-nucleus and spatial transcriptomics reveal intestinal cellular heterogeneity, differentiation, and cell communication mechanisms in SAP-induced intestinal injury

    doi: 10.3389/fimmu.2026.1719902

    Figure Lengend Snippet: Single-nucleus transcriptome and spatial transcriptomics landscape of the ileal tissue of SAP and CON group rats. (A) Schematic illustration of the workflow for this study. (B) Representative Hematoxylin and Eosin (H&E)–stained ileal sections from CON and SAP rats. (C) UMAP plot of single-nucleus transcriptome profiles of SAP and CON group samples. Colors indicate groups, clusters and cell types. (D) Heatmap plot of marker genes for cell annotation. (E) Bar plot showing cell-type proportions (mean ± SEM) in snRNA-seq data. (F) Spatial transcriptomics profiles of SAP and CON group samples. Colors indicate cell types. (G) Bar plot showing cell-type proportions (mean ± SEM) in spatial transcriptomics (Stereo-seq) data. Statistical significance: ns, not significant; *P < 0.05; **P < 0.01; ***P < 0.001; ****P < 0.0001.

    Article Snippet: The spatial transcriptomics data were obtained according to the protocol of STOmics Gene Expression Set-S1 on the website ( https://www.stomics.tech/ ), which is an improved version of initial procedures.

    Techniques: Spatial Transcriptomics, Staining, Marker

    (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