Targeted Gene Expression Overview for Visium Spatial Gene Expression

Use pre-designed panels for targeted gene expression, followed by sequencing and data analysis.

Targeted

Targeted Gene Expression (Optional)

Visium Spatial Gene Expression measures the whole transcriptome of intact fresh frozen sections in a spatially resolved manner by mapping gene expression over a high-resolution microscope image of the H&E- or IF-stained tissue.

Plan ahead by referring to the list of equipment, kits, and reagents needed for the Visium Spatial protocol.

Experimental Design

Experimental Design & Planning

For proper tissue handling and preparation techniques to preserve the morphology, quality, and integrity of tissue sections, refer to our Tissue Preparation Guide.

Tissue Prep

Methanol fix, stain, and image tissue following our Demonstrated Protocol.

Tissue Staining

Optimize permeabilization conditions for your fresh frozen tissue sections by following our step-by step User Guide.

Tissue Optimization

For imaging hardware, general image acquisition and analysis guidelines, and example images, refer to our Technical Note.

Imaging

Construct a sequencing-ready Visium spatial library from your fresh frozen tissue sections following our step-by-step User Guide.

Library Construction

Sequence your Visium spatial library as per our provided recommendations.

Sequencing

Analyze your Visium spatial data using our pipelines and visualization tools.

Software Analysis

Visium CytAssist

Spatial Gene Expression

Overview

Documentation

Datasets

Videos

Publications

Spatial Gene Expression for Fresh Frozen

What is Spatial Gene Expression for Fresh Frozen?

Find resources, from protocols to free-to-use analysis tools.

Access free, publicly available data from a number of different sample types generated with Visium spatial solutions

Explore how-to videos and training modules.

Visium Tissue Preparation Guide

Visium Tissue Optimization

Visium Gene Expression

Find answers to common technical questions, from sample prep through data analysis, about Visium spatial workflows.

Read key peer-reviewed research publications offering greater insights into biology, enabled by 10x Genomics products and technologies.