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Spatial Transcriptomics Inc spatial transcriptomics st data
Spatial Transcriptomics St Data, 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+transcriptomics+st/data+sequencing+spatial+transcriptomics/pm41610146-199-7-7
Average 86 stars, based on 1 article reviews
spatial transcriptomics st data - by Bioz Stars, 2026-09
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Spatial Transcriptomics:

Article Title: Spatial domain identification method based on multi-view graph convolutional network and contrastive learning.
Article Snippet: .. Spatial Transcriptomics (ST) is a rapidly evolving biotechnology in recent years that allows researchers to observe gene expression in individual cells or spots, and access the specific spatial location of these cells in a tissue. ..

Article Title: MaskGraphene: an advanced framework for interpretable joint representation for multi-slice, multi-condition spatial transcriptomics
Article Snippet: .. Advancements in Spatial Transcriptomics (ST) have bridged the gap between transcriptomic profiling and spatial context by enabling simultaneous measurement of mRNA expression and spatial coordinates within tissue sections [ ]. ..

Article Title: Spatial domain identification method based on multi-view graph convolutional network and contrastive learning
Article Snippet: .. Spatial Transcriptomics (ST) is a rapidly evolving biotechnology in recent years that allows researchers to observe gene expression in individual cells or spots, and access the specific spatial location of these cells in a tissue. ..

Article Title: AI-driven virtual cell models in preclinical research: technical pathways, validation mechanisms, and clinical translation potential
Article Snippet: Single-cell transcriptomics (scRNA-seq) , NCBI GEO; EBI ArrayExpress; Human Cell Atlas (HCA); HuBMAP; CZ CELLxGENE , , Cell level; transcript abundance , Cell-type identification; developmental/disease trajectory inference; perturbation-response modeling , Primary archives provide the most comprehensive raw datasets. Curated atlases supply uniformly processed, analysis-ready data that help mitigate batch effects.. .. Spatial transcriptomics (ST) , NCBI GEO; STOmicsDB; SpatialDB; HCA; HuBMAP , , Subcellular to multi-cellular spots; spatial gene expression , Spatial deconvolution; tissue microenvironment inference; cell–cell interaction modeling , The data ecosystem is maturing rapidly. Specialized databases offer visualization tools, but update cadence requires attention. Primary archives are common deposition sites, though standardized spatial metadata may be incomplete.. .. Multi-omics (e.g., scATAC-seq) , NCBI GEO; EBI ArrayExpress; HCA; HuBMAP; CZ CELLxGENE , , Cell level; joint RNA and chromatin accessibility , Cross-modal alignment; gene regulatory network inference; lineage tracing; fine-grained state delineation , Integrated atlases are critical for discovering joint distributions and building multi-layered cellular models..

Gene Expression:

Article Title: Spatial domain identification method based on multi-view graph convolutional network and contrastive learning.
Article Snippet: .. Spatial Transcriptomics (ST) is a rapidly evolving biotechnology in recent years that allows researchers to observe gene expression in individual cells or spots, and access the specific spatial location of these cells in a tissue. ..

Article Title: Spatial domain identification method based on multi-view graph convolutional network and contrastive learning
Article Snippet: .. Spatial Transcriptomics (ST) is a rapidly evolving biotechnology in recent years that allows researchers to observe gene expression in individual cells or spots, and access the specific spatial location of these cells in a tissue. ..

Article Title: AI-driven virtual cell models in preclinical research: technical pathways, validation mechanisms, and clinical translation potential
Article Snippet: Single-cell transcriptomics (scRNA-seq) , NCBI GEO; EBI ArrayExpress; Human Cell Atlas (HCA); HuBMAP; CZ CELLxGENE , , Cell level; transcript abundance , Cell-type identification; developmental/disease trajectory inference; perturbation-response modeling , Primary archives provide the most comprehensive raw datasets. Curated atlases supply uniformly processed, analysis-ready data that help mitigate batch effects.. .. Spatial transcriptomics (ST) , NCBI GEO; STOmicsDB; SpatialDB; HCA; HuBMAP , , Subcellular to multi-cellular spots; spatial gene expression , Spatial deconvolution; tissue microenvironment inference; cell–cell interaction modeling , The data ecosystem is maturing rapidly. Specialized databases offer visualization tools, but update cadence requires attention. Primary archives are common deposition sites, though standardized spatial metadata may be incomplete.. .. Multi-omics (e.g., scATAC-seq) , NCBI GEO; EBI ArrayExpress; HCA; HuBMAP; CZ CELLxGENE , , Cell level; joint RNA and chromatin accessibility , Cross-modal alignment; gene regulatory network inference; lineage tracing; fine-grained state delineation , Integrated atlases are critical for discovering joint distributions and building multi-layered cellular models..

Article Title: Impact of single-cell RNA reference selection for the deconvolution of breast cancer spatial transcriptomics datasets
Article Snippet: .. Spot-based Spatial transcriptomics (ST) allows for unbiased gene expression analysis within tissue architecture, overcoming the limitations of single-cell RNA sequencing (scRNA-seq) by preserving spatial context. ..

Article Title: DiffuScope: A diffusion-regularized autoencoder for spatial transcriptomic clustering.
Article Snippet: In recent years, the rapid advancement of spatial transcriptomics technologies has led to the public availability of a large and diverse collection of datasets spanning multiple species, organs, and tissue types.. These datasets exhibit substantial biological and technical heterogeneity, highlighting the urgent need for a generalizable clustering algorithm capable of adapting to such diversity.. To address this challenge, we propose DiffuScope, a clustering framework based on Graph Convolutional Variational Autoencoders (GC-VAE).

Expressing:

Article Title: MaskGraphene: an advanced framework for interpretable joint representation for multi-slice, multi-condition spatial transcriptomics
Article Snippet: .. Advancements in Spatial Transcriptomics (ST) have bridged the gap between transcriptomic profiling and spatial context by enabling simultaneous measurement of mRNA expression and spatial coordinates within tissue sections [ ]. ..

Preserving:

Article Title: The Spatiotemporal Heterogeneity of Tumor-Associated Stromal Cells: Reprogramming Plasticity to Unlock Precision Cancer Immunotherapy
Article Snippet: .. Spatial transcriptomics (ST) and its derivative platforms (e.g., Visium, MERSCOPE, CosMx, and Stereo-seq) provide insights into the cellular ecological niche of the TME while preserving spatial topological information [ ]. ..

Article Title: Unraveling Traditional Chinese Medicine with single-cell RNA sequencing: Current applications and future frontiers.
Article Snippet: .. Spatial Transcriptomics (ST) effectively addresses the core limitation of scRNA-seq in lacking spatial information, preserving the spatial location information of cells. ..

Article Title: Impact of single-cell RNA reference selection for the deconvolution of breast cancer spatial transcriptomics datasets
Article Snippet: .. Spot-based Spatial transcriptomics (ST) allows for unbiased gene expression analysis within tissue architecture, overcoming the limitations of single-cell RNA sequencing (scRNA-seq) by preserving spatial context. ..

Article Title: DiffuScope: A diffusion-regularized autoencoder for spatial transcriptomic clustering.
Article Snippet: In recent years, the rapid advancement of spatial transcriptomics technologies has led to the public availability of a large and diverse collection of datasets spanning multiple species, organs, and tissue types.. These datasets exhibit substantial biological and technical heterogeneity, highlighting the urgent need for a generalizable clustering algorithm capable of adapting to such diversity.. To address this challenge, we propose DiffuScope, a clustering framework based on Graph Convolutional Variational Autoencoders (GC-VAE).

High Content Screening:

Article Title: AI-driven virtual cell models in preclinical research: technical pathways, validation mechanisms, and clinical translation potential
Article Snippet: Single-cell transcriptomics (scRNA-seq) , NCBI GEO; EBI ArrayExpress; Human Cell Atlas (HCA); HuBMAP; CZ CELLxGENE , , Cell level; transcript abundance , Cell-type identification; developmental/disease trajectory inference; perturbation-response modeling , Primary archives provide the most comprehensive raw datasets. Curated atlases supply uniformly processed, analysis-ready data that help mitigate batch effects.. .. Spatial transcriptomics (ST) , NCBI GEO; STOmicsDB; SpatialDB; HCA; HuBMAP , , Subcellular to multi-cellular spots; spatial gene expression , Spatial deconvolution; tissue microenvironment inference; cell–cell interaction modeling , The data ecosystem is maturing rapidly. Specialized databases offer visualization tools, but update cadence requires attention. Primary archives are common deposition sites, though standardized spatial metadata may be incomplete.. .. Multi-omics (e.g., scATAC-seq) , NCBI GEO; EBI ArrayExpress; HCA; HuBMAP; CZ CELLxGENE , , Cell level; joint RNA and chromatin accessibility , Cross-modal alignment; gene regulatory network inference; lineage tracing; fine-grained state delineation , Integrated atlases are critical for discovering joint distributions and building multi-layered cellular models..

RNA Sequencing:

Article Title: Impact of single-cell RNA reference selection for the deconvolution of breast cancer spatial transcriptomics datasets
Article Snippet: .. Spot-based Spatial transcriptomics (ST) allows for unbiased gene expression analysis within tissue architecture, overcoming the limitations of single-cell RNA sequencing (scRNA-seq) by preserving spatial context. ..



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Spatial Transcriptomics Inc spatial transcriptomics st data
Spatial Transcriptomics St Data, 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+transcriptomics+st/data+sequencing+spatial+transcriptomics/pm41610146-199-7-7
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Spatial Transcriptomics St, 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
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Spatial Transcriptomics St Technologies, 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
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Spatial Transcriptomics Inc breast cancer spatial transcriptomics st
Spatial organization and cell-cell communication networks in the tumor microenvironment. (A–C) The developmental trajectories of cell sub-populations from a spatial perspective are investigated. (D, E) Heatmap and network diagrams displaying cell–cell dependency analysis in the colocated, neighboring, and extended neighboring (15-point) regions of the spatial <t>transcriptomics</t> data. (F) The interaction heatmap visualized the intensity of intercellular interactions mediated by the ligand-receptor pairs. (G) The spatial cell communication network diagram illustrates that NUhighepi exhibit a higher intensity of cell communication with other cells. (H) Circos plot summarizing cell-type-specific interaction patterns.
Breast Cancer Spatial Transcriptomics St, 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+transcriptomics+st/breast+data+her2+human+positive+spatial+transcriptomics+tumor/pmc12847018-99-0-2
Average 86 stars, based on 1 article reviews
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Spatial Transcriptomics Inc salus sts high resolution spatial transcriptomics
<t>Salus-STS</t> <t>high-resolution</t> spatial <t>transcriptomics</t> enables effective cell identification at the subcellular level. (A) Schematics illustrating of the study. (B) Results of cell segmentation via the Salus Cellbins Algorithm. (C–F) Distributions and medians (red text in the figures) of the area (in pixel 2 ) (C) , UMI counts (D) , gene numbers (E) , and proportions of mitochondrial UMIs (F) of segmented cellbins.
Salus Sts High Resolution Spatial Transcriptomics, 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
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Spatial organization and cell-cell communication networks in the tumor microenvironment. (A–C) The developmental trajectories of cell sub-populations from a spatial perspective are investigated. (D, E) Heatmap and network diagrams displaying cell–cell dependency analysis in the colocated, neighboring, and extended neighboring (15-point) regions of the spatial transcriptomics data. (F) The interaction heatmap visualized the intensity of intercellular interactions mediated by the ligand-receptor pairs. (G) The spatial cell communication network diagram illustrates that NUhighepi exhibit a higher intensity of cell communication with other cells. (H) Circos plot summarizing cell-type-specific interaction patterns.

Journal: Frontiers in Oncology

Article Title: Spatial transcriptome and single-cell sequencing reveal the role of nucleotide metabolism in breast cancer progression and tumor microenvironment

doi: 10.3389/fonc.2025.1703778

Figure Lengend Snippet: Spatial organization and cell-cell communication networks in the tumor microenvironment. (A–C) The developmental trajectories of cell sub-populations from a spatial perspective are investigated. (D, E) Heatmap and network diagrams displaying cell–cell dependency analysis in the colocated, neighboring, and extended neighboring (15-point) regions of the spatial transcriptomics data. (F) The interaction heatmap visualized the intensity of intercellular interactions mediated by the ligand-receptor pairs. (G) The spatial cell communication network diagram illustrates that NUhighepi exhibit a higher intensity of cell communication with other cells. (H) Circos plot summarizing cell-type-specific interaction patterns.

Article Snippet: Breast cancer spatial transcriptomics (ST) data were acquired from the GEO database ( https://www.ncbi.nlm.nih.gov/geo/ ) and 10x Genomics official website ( https://www.10xgenomics.com/ ).

Techniques:

Salus-STS high-resolution spatial transcriptomics enables effective cell identification at the subcellular level. (A) Schematics illustrating of the study. (B) Results of cell segmentation via the Salus Cellbins Algorithm. (C–F) Distributions and medians (red text in the figures) of the area (in pixel 2 ) (C) , UMI counts (D) , gene numbers (E) , and proportions of mitochondrial UMIs (F) of segmented cellbins.

Journal: Frontiers in Reproductive Health

Article Title: Spatiotemporal dynamics of spermatogenesis: insights from high-resolution spatial transcriptomics and pseudotime trajectories in mouse testes

doi: 10.3389/frph.2025.1747902

Figure Lengend Snippet: Salus-STS high-resolution spatial transcriptomics enables effective cell identification at the subcellular level. (A) Schematics illustrating of the study. (B) Results of cell segmentation via the Salus Cellbins Algorithm. (C–F) Distributions and medians (red text in the figures) of the area (in pixel 2 ) (C) , UMI counts (D) , gene numbers (E) , and proportions of mitochondrial UMIs (F) of segmented cellbins.

Article Snippet: In this study, we used Salus-STS high-resolution spatial transcriptomics (∼1 μm resolution) and Salus Cellbins Algorithm to characterize the spatial transcriptomic profile of mouse testes at single-cell level.

Techniques:

Cellbin-based analysis enables accurate identification of distinct cell types in the mouse testis. (A) RCTD-annotated distinct cell types and their proportions. (B) UMAP visualization of the Salus-STS Cellbin data with scRNA-Seq data. (C) Spatial distribution of distinct cell types in the mouse testis. (D) Integrated distribution map of cell distributions in the mouse testis. (E) Markers of distinct cell types and their expression levels. Scaled expression: the average expression level scaled across genes to eliminate the effect of total expression level differences among genes. Percentage: for each cell type, the percentage of cellbins that express the specific gene out of all cellbins of the same type.

Journal: Frontiers in Reproductive Health

Article Title: Spatiotemporal dynamics of spermatogenesis: insights from high-resolution spatial transcriptomics and pseudotime trajectories in mouse testes

doi: 10.3389/frph.2025.1747902

Figure Lengend Snippet: Cellbin-based analysis enables accurate identification of distinct cell types in the mouse testis. (A) RCTD-annotated distinct cell types and their proportions. (B) UMAP visualization of the Salus-STS Cellbin data with scRNA-Seq data. (C) Spatial distribution of distinct cell types in the mouse testis. (D) Integrated distribution map of cell distributions in the mouse testis. (E) Markers of distinct cell types and their expression levels. Scaled expression: the average expression level scaled across genes to eliminate the effect of total expression level differences among genes. Percentage: for each cell type, the percentage of cellbins that express the specific gene out of all cellbins of the same type.

Article Snippet: In this study, we used Salus-STS high-resolution spatial transcriptomics (∼1 μm resolution) and Salus Cellbins Algorithm to characterize the spatial transcriptomic profile of mouse testes at single-cell level.

Techniques: Expressing

High-resolution spatial transcriptomics uncovers spatiotemporal markers of spermatogenesis. (A) Pseudotime trajectory analysis. (B) Randomly selected seminiferous tubules. (C,D) Top 6 genes with expression levels positively (C) and negatively (D) correlated with the axis from the tubule basement membrane (epithelium) to the lumen center respectively.

Journal: Frontiers in Reproductive Health

Article Title: Spatiotemporal dynamics of spermatogenesis: insights from high-resolution spatial transcriptomics and pseudotime trajectories in mouse testes

doi: 10.3389/frph.2025.1747902

Figure Lengend Snippet: High-resolution spatial transcriptomics uncovers spatiotemporal markers of spermatogenesis. (A) Pseudotime trajectory analysis. (B) Randomly selected seminiferous tubules. (C,D) Top 6 genes with expression levels positively (C) and negatively (D) correlated with the axis from the tubule basement membrane (epithelium) to the lumen center respectively.

Article Snippet: In this study, we used Salus-STS high-resolution spatial transcriptomics (∼1 μm resolution) and Salus Cellbins Algorithm to characterize the spatial transcriptomic profile of mouse testes at single-cell level.

Techniques: Expressing, Membrane