10xGenomics Visium

Spatial transcriptomics approaches conserve the localization of transcript expression in tissue. This spatial information is crucial for contextualizing a transcriptomic phenotype observed at histological level and deducing its function, or for comparing pathology-induced expression variations within the same tissue. 10X Genomics Visium is a spatial genomics platform that captures whole transcriptome gene expression data within FFPE or fresh frozen tissue sections, providing spatial context to transcriptomic information. It involves depositing a histological section about ten micrometers thick on a 6.5 mm square slide, gridded by 5,000 “spots” containing specific positional barcodes. These spots measure 55 μm and their centers are separated from each other by 100μm. Tissue cells are first permeabilized so that their RNAs are captured by the underlying spots and then retrotranscribed. The resulting cDNAs are then pooled and prepared for Illumina sequencing.
https://www.10xgenomics.com/products/spatial-gene-expression

Available assays

assay	omic	resolution	link
Sequencing-based spatial gene expression	Transcriptomics	Spatial	https://www.nature.com/articles/s41592-024-02325-3