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Spatial Gene Expression for Fresh Frozen

Spatial Gene Expression for Fresh Frozen

What is Spatial Gene Expression for Fresh Frozen?

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.

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

Experimental Design & Planning

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

Tissue Prep

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

Tissue Staining

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

Tissue Optimization

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


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

Library Construction

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

Targeted Gene Expression (Optional)

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


Sequence your Visium spatial library as per our provided recommendations.

Software Analysis

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


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

View datasets


Explore how-to videos and training modules.

Visium Tissue Preparation Guide video
How-to series
Visium Tissue Preparation Guide
Visium Tissue Optimization video
How-to series
Visium Tissue Optimization
Visium Gene Expression video
How-to series
Visium Gene Expression
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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.