Review



cosmx slides  (10X Genomics)

 
  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
    • 90
      Buy from Supplier

    Structured Review

    10X Genomics cosmx slides
    A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring <t>CosMx</t> SMI <t>and</t> <t>10x</t> Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.
    Cosmx Slides, supplied by 10X Genomics, 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/result/cosmx slides/product/10X Genomics
    Average 90 stars, based on 1 article reviews
    cosmx slides - by Bioz Stars, 2026-06
    90/100 stars

    Images

    1) Product Images from "A Comparative Analysis of Imaging-Based Spatial Transcriptomics Platforms"

    Article Title: A Comparative Analysis of Imaging-Based Spatial Transcriptomics Platforms

    Journal: bioRxiv

    doi: 10.1101/2023.12.13.571385

    A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring CosMx SMI and 10x Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.
    Figure Legend Snippet: A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring CosMx SMI and 10x Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.

    Techniques Used: RNA Sequencing, Expressing, Transformation Assay, Staining, Imaging, Immunofluorescence

    A. Tissue structure of colon (top; Xenium: public data from 10x Genomics, CosMx: Garrido-Trigo et al. ), lung cancer (middle, Xenium: public data from 10x Genomics, CosMx: public data from NanoString Technologies), and breast cancer (bottom; Xenium and CosMx provided the Suzuki lab, University of Tokyo). Cell annotations are based on automated annotation from scRNA-seq reference datasets. B. Average detection of gene-targeting and control probe sets. C. Spatial autocorrelation (Moran’s I) of all probes in each data set (top panels). A comparison of Moran’s I values for common gene targets is shown in each bottom panel. The dashed line reflects a slope of 1. D. Correlation of spatial transcriptomics data from each platform with a scRNA-seq reference (Breast cancer, Wu et al. ; Lung cancer, Kim et al. ; Colon, custom integration of public data, available with data from this manuscript). Given that reference data is from a different source and cellular composition may differ, values only from annotated endothelial cells are shown as an example. E. Transcript abundance for canonical markers in cells with the specified annotation are colored as the maximal value.
    Figure Legend Snippet: A. Tissue structure of colon (top; Xenium: public data from 10x Genomics, CosMx: Garrido-Trigo et al. ), lung cancer (middle, Xenium: public data from 10x Genomics, CosMx: public data from NanoString Technologies), and breast cancer (bottom; Xenium and CosMx provided the Suzuki lab, University of Tokyo). Cell annotations are based on automated annotation from scRNA-seq reference datasets. B. Average detection of gene-targeting and control probe sets. C. Spatial autocorrelation (Moran’s I) of all probes in each data set (top panels). A comparison of Moran’s I values for common gene targets is shown in each bottom panel. The dashed line reflects a slope of 1. D. Correlation of spatial transcriptomics data from each platform with a scRNA-seq reference (Breast cancer, Wu et al. ; Lung cancer, Kim et al. ; Colon, custom integration of public data, available with data from this manuscript). Given that reference data is from a different source and cellular composition may differ, values only from annotated endothelial cells are shown as an example. E. Transcript abundance for canonical markers in cells with the specified annotation are colored as the maximal value.

    Techniques Used: Control, Comparison



    Similar Products

    cosmx rna and protein fresh frozen manual slide preparation  (Bruker Corporation)
    90
    Bruker Corporation cosmx rna and protein fresh frozen manual slide preparation
    Cosmx Rna And Protein Fresh Frozen Manual Slide Preparation, supplied by Bruker Corporation, 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/result/cosmx rna and protein fresh frozen manual slide preparation/product/Bruker Corporation
    Average 90 stars, based on 1 article reviews
    cosmx rna and protein fresh frozen manual slide preparation - by Bioz Stars, 2026-06
    90/100 stars
    		  Buy from Supplier
    cosmx slides  (10X Genomics)
    90
    10X Genomics cosmx slides
    A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring <t>CosMx</t> SMI <t>and</t> <t>10x</t> Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.
    Cosmx Slides, supplied by 10X Genomics, 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/result/cosmx slides/product/10X Genomics
    Average 90 stars, based on 1 article reviews
    cosmx slides - by Bioz Stars, 2026-06
    90/100 stars
    		  Buy from Supplier
    standard superfrost slides for cosmx  (Danaher Inc)
    86
    Danaher Inc standard superfrost slides for cosmx
    A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring <t>CosMx</t> SMI <t>and</t> <t>10x</t> Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.
    Standard Superfrost Slides For Cosmx, supplied by Danaher 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/result/standard superfrost slides for cosmx/product/Danaher Inc
    Average 86 stars, based on 1 article reviews
    standard superfrost slides for cosmx - by Bioz Stars, 2026-06
    86/100 stars
    		  Buy from Supplier

    Image Search Results


    A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring CosMx SMI and 10x Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.

    Journal: bioRxiv

    Article Title: A Comparative Analysis of Imaging-Based Spatial Transcriptomics Platforms

    doi: 10.1101/2023.12.13.571385

    Figure Lengend Snippet: A. Schematic of the Experimental Design: Serial sections of FFPE prostate adenocarcinoma were simultaneously processed for spatial transcriptomics using Nanostring CosMx SMI and 10x Genomics Xenium, single-nucleus RNA sequencing (snPATHO-seq), and histological analysis. B. Annotated UMAP Embedding of snPATHO-seq Data: Cell types were annotated utilizing reference scRNA-seq data of human prostate from Tuong et al. , along with canonical markers for each cell type. C. Expression and Detection Frequency of Top 3 Markers: The top three markers (p<0.05, ranked by logFC) for each cell type are shown. Log(CP10k+1) represents the log-transformed transcript counts per 10,000 transcripts. D. Top: H&E Stain of Each Section Following Xenium or CosMx Imaging: Post-imaging, CosMx tissues undergo additional processing for immunofluorescence, which affects the stain quality. Bottom: Spatial Transcriptomics Data: Each cell is depicted as a point, positioned at its centroid. Cells are color-coded by total transcript count. E. Correlation of Mean Transcript Counts for Each Probe in the Assay Across Replicates on the Same Platform: The Pearson correlation coefficient for both platforms >0.99.

    Article Snippet: Post-run H&E staining of CosMx slides also utilized the precise steps and timing of the 10X Genomics H&E staining protocol, except for the initial sodium hydrosulphite treatment.

    Techniques: RNA Sequencing, Expressing, Transformation Assay, Staining, Imaging, Immunofluorescence

    A. Tissue structure of colon (top; Xenium: public data from 10x Genomics, CosMx: Garrido-Trigo et al. ), lung cancer (middle, Xenium: public data from 10x Genomics, CosMx: public data from NanoString Technologies), and breast cancer (bottom; Xenium and CosMx provided the Suzuki lab, University of Tokyo). Cell annotations are based on automated annotation from scRNA-seq reference datasets. B. Average detection of gene-targeting and control probe sets. C. Spatial autocorrelation (Moran’s I) of all probes in each data set (top panels). A comparison of Moran’s I values for common gene targets is shown in each bottom panel. The dashed line reflects a slope of 1. D. Correlation of spatial transcriptomics data from each platform with a scRNA-seq reference (Breast cancer, Wu et al. ; Lung cancer, Kim et al. ; Colon, custom integration of public data, available with data from this manuscript). Given that reference data is from a different source and cellular composition may differ, values only from annotated endothelial cells are shown as an example. E. Transcript abundance for canonical markers in cells with the specified annotation are colored as the maximal value.

    Journal: bioRxiv

    Article Title: A Comparative Analysis of Imaging-Based Spatial Transcriptomics Platforms

    doi: 10.1101/2023.12.13.571385

    Figure Lengend Snippet: A. Tissue structure of colon (top; Xenium: public data from 10x Genomics, CosMx: Garrido-Trigo et al. ), lung cancer (middle, Xenium: public data from 10x Genomics, CosMx: public data from NanoString Technologies), and breast cancer (bottom; Xenium and CosMx provided the Suzuki lab, University of Tokyo). Cell annotations are based on automated annotation from scRNA-seq reference datasets. B. Average detection of gene-targeting and control probe sets. C. Spatial autocorrelation (Moran’s I) of all probes in each data set (top panels). A comparison of Moran’s I values for common gene targets is shown in each bottom panel. The dashed line reflects a slope of 1. D. Correlation of spatial transcriptomics data from each platform with a scRNA-seq reference (Breast cancer, Wu et al. ; Lung cancer, Kim et al. ; Colon, custom integration of public data, available with data from this manuscript). Given that reference data is from a different source and cellular composition may differ, values only from annotated endothelial cells are shown as an example. E. Transcript abundance for canonical markers in cells with the specified annotation are colored as the maximal value.

    Article Snippet: Post-run H&E staining of CosMx slides also utilized the precise steps and timing of the 10X Genomics H&E staining protocol, except for the initial sodium hydrosulphite treatment.

    Techniques: Control, Comparison