Spatial transcriptomics produces high-dimensional gene expression measurements with spatial context. Obtaining a biologically meaningful low-dimensional representation of such data is crucial for effective inte
(https://satijalab.org/seurat/) to define cell types. Seurat has gained widespread popularity in the field of spatial transcriptomics due to its robustness, scalability, and user-friendly interface. It offers various modules that facilitate the analysis workflow, enabling researchers to perform tasks...
Spatial transcriptomics combines high-plex quantification with the spatial resolution of immunohistochemistry. This technology classifies tissue based on total mRNA within the morphological context of FFPE or frozen tissues. Spatial expression mapping is a powerful tool for examining cellular interactions, tiss...
Finally, we perform the data integration to predict the cell type composition within the determined spatial domains.Spatial transcriptomics analysis is a powerful method that has highly improved critical aspects of cancer research, such as the characterization of tumor microenvironment, the discovery of ...
Advances in spatial transcriptomics techniques Spatial transcriptomics is a technology that integrates imaging, biomarkers analysis, sequencing, and bioinformatics to precisely locate gene expression within tissue slices. It reveals the spatial distribution of diverse cell types in tissues, investigates the int...
Spatial transcriptomics is a technology that integrates imaging, biomarkers analysis, sequencing, and bioinformatics to precisely locate gene expression within tissue slices. It reveals the spatial distribution of diverse cell types in tissues, investigates the interactions between cell populations, and constr...
SpatialExperimentWorkflow.html rownm.txt seqFISHSubcellular.Rmd seqFISH_Clustering.html seqFISH_Clustering.rmd seqFISH_spatialAnalysis.Rmd seqFISH_spatialAnalysis.html Repository files navigation README This repository borns as a collection of Spatial Transcriptomics data analysis workflows. Eventually...
Discover what's possible with spatial transcriptomics, including the additional depth it can add to single cell research projects, through these high-impact publications. Human liver cancer; Visium Spatial Zhang S, et al. Spatial transcriptomics analysis of neoadjuvant cabozantinib and nivolumab in advan...
Plunge into the intricate world of cellular biology with MERSCOPE UltraTM. Capture high-resolution spatial transcriptomics across an expansive 3.0 cm2imaging area, revealing the transcriptome with unmatched clarity. Discover MERSCOPE Pioneering Spatial Genomics ...
Overview of Bento data infrastructure for subcellular analysis In order to facilitate a flexible workflow, Bento is generally compatible with molecule-level resolution spatial transcriptomics data (Fig.1A), such as datasets produced by MERFISH [13], seqFISH + [14], CosMx (NanoString) [33], ...