Single cell scale resolution whole transcriptome probe-based gene expression assay compatible with FFPE, Fresh Frozen, & Fixed Frozen tissue sections.

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

Visium CytAssist

Compact instrument designed to simplify the Visium workflow by facilitating the transfer of analytes from standard glass slides to Visium slides.

HD Spatial Gene Expression

Visium

Gene Expression

Whole transcriptome probe-based gene expression assay at single cell scale, compatible with FFPE, Fresh Frozen, and Fixed Frozen tissue sections

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

Experimental Design

Experimental Planning and Design

Best practices for handling FFPE tissue samples and generating tissue slides. Protocol outlines deparaffinization, staining, and decrosslinking of tissue sections.

Tissue Prep & Staining for FFPE

Best practices for preparing and handling Fixed Frozen tissue samples and generating tissue slides. Protocol outlines rehydration, staining, and decrosslinking of tissue sections.

Tissue Prep & Staining for Fixed Frozen

Best practices for preparing and handling Fresh Frozen tissue samples and generating tissue slides. Protocol outlines fixation, staining, and permeabilization of tissue sections.

Tissue Prep & Staining for Fresh Frozen

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

Imaging

Find a list of probes targeting protein-coding genes for the Visium HD Spatial Gene Expression assay.

Probe Sets

Construct a sequencing-ready Visium HD spatial library from your FFPE, Fresh Frozen, or Fixed Frozen tissue sections.

Library Construction

Refer to instrument-specific documents for seamless instrument operation.

Instruments

Sequence your Visium spatial library as per our provided recommendations.

Sequencing

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

Software Analysis

Workflow Documentation

Protein co-detection

Overview

User Guides

Datasets

Videos

What is Visium HD Spatial Gene Expression?

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

Visium CytAssist Instrument

Key Techniques for Visium HD Slide Preparation & Use

Key Techniques for Tissue Slide Handling & Use

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