Provides guidance on best practices for handling tissue samples and slides before and after sectioning, removing hard coverslips from archived tissue slides, sectioning of tissue samples, placement of sections on slides, and preforming RNA quality assessment of FFPE tissue blocks or archived H&E sections.

Visium CytAssist Spatial Gene and Protein Expression for FFPE – Tissue Preparation Guide

Tissue Prep

Visium CytAssist Spatial Gene and Protein Expression simultaneously measures whole transcriptome and highly multiplexed protein expression of FFPE tissue sections in a spatially resolved manner by mapping gene and protein 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 Spatial Gene and Protein Expression protocols

Experimental Design

Experimental Planning & Design

Deparaffinize, decrosslink, and stain tissue

Tissue Staining

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

Imaging

Find a list of probes targeting protein-coding genes in human transcriptome for the Spatial Gene and Protein Expression assay

Probe Set

Find a list of proteins detected by the human protein panel for the Spatial Gene and Protein Expression assay

Protein Panel

Construct sequencing-ready Visium spatial libraries from your FFPE tissue sections

Library Construction

Refer to instrument-specific documents for seamless instrument operation

Instruments

Sequence your Spatial Gene and Protein Expression libraries as per our provided recommendations

Sequencing

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

Software Analysis

Visium CytAssist

CytAssist Spatial Gene and Protein Expression

Overview

Documentation

Datasets

Videos

Spatial Gene and Protein Expression

What is Visium CytAssist Spatial Gene and Protein Expression?

Find resources, from protocols to free-to-use analysis tools. Visium CytAssist Spatial Gene and Protein Expression currently supports immune cell-containing human FFPE samples.

Official datasets are coming soon. Access free, publicly available data from a number of different sample types generated with Visium Spatial solutions.

Videos - Spatial Gene and Protein Expression

Visium CytAssist Instrument

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

Visium CytAssist Spatial Gene and Protein Expression for FFPE – Tissue Preparation Guide

Demonstrated Protocol, CG000660

CG000660_Demonstrated_Protocol_VisiumCytAssistSpatialProtocolsProteinFFPE_TissuePreparationGuide_RevA.pdf