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Spatial Gene Expression for FFPE

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What is Spatial Gene Expression for FFPE?

Visium Spatial Gene Expression analyzes the whole transcriptome of FFPE tissue sections in a spatially resolved manner by mapping gene expression over a high-resolution microscope image of the tissue.

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Documentation

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

Experimental Planning and Design

Plan ahead by referring to the list of equipment, kits, and reagents needed for the Visium Spatial Gene Expression for FFPE protocols.

Tissue Prep

For proper FFPE tissue sectioning and placement.

Tissue Staining

Deparaffinize, stain, image, and decrosslink tissue.

Imaging

For imaging hardware, general image acquisition and analysis guidelines, and example images.

Probe Sets

Find a list of probes targeting protein-coding genes in human or mouse transcriptome for the Visium for FFPE assay.

Library Construction

Construct a sequencing-ready Visium spatial library from your FFPE tissue sections.

Sequencing

Sequence your Visium spatial library as per our provided recommendations.

Software Analysis

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

Videos - Visium Spatial Gene Expression for FFPE

Visium Spatial Gene Expression for FFPE Protocol video
How-to series
Visium Spatial Gene Expression for FFPE Protocol
Visium Spatial Gene Expression for FFPE Tissue Preparation Guide video
Demonstrated Protocol series
Visium Spatial Gene Expression for FFPE Tissue Preparation Guide
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Q&A

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

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Q&A
Publications

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

Publications