5,000-gene panels
Explore diverse biological functions in human and mouse
Add on up to 100 custom genes
Why choose 5,000-gene panels
Large-scale exploration across tissues and organs
Expertly curated panels include targets for cell typing, disease areas, and drug targets
Assay specifications
Mouse
Human
Species
FFPE tissue
Fresh frozen tissue
Tumor microarrays (TMAs)
Compatible samples
Probe-based gene expression
Protein (IF)
Morphology (H&E)
Same section capabilities
Customization
Add on up to 100 custom genes
Compatible instruments
Throughput options
2 Xenium slides per run (up to 472 mm² of tissue) <6 days per run
Ready-to-use panel options
Xenium Prime 5K Human Pan Tissue & Pathways Panel
Enables high-plex analysis of biological pathways, receptor–ligand pairs, cell–cell interactions, biomarkers, and more.
5006 genes on panel
Up to 100 add-on genes
Xenium Prime 5K Mouse Pan Tissue & Pathways Panel
Enables high-plex analysis of biological pathways, receptor–ligand pairs, cell–cell interactions, biomarkers, and more.
5006 genes on panel
Up to 100 add-on genes
Find a Xenium panel
The Xenium Panel Selector helps you find the right panel, letting you filter by and/or enter genes to check overlap with 10x Genomics pre-designed panels. It also highlights genes for custom add-on panels.
Assay components
In Situ Gene Expression
To order a custom panel with your preferred gene list, please use the Xenium Panel Designer to select your gene list and generate a Custom Design Panel (CDP) number. For more complex projects, please contact your Account Executive and ask about Advanced Custom panels.
Documents and resources
Sample prep
Customization
Technical notes
Analysis guides
Resources
Multimodal spatial reconstruction of autoimmune diseases with 5,000-gene assays
In situ detection of HPV expression in human cervical cancer with Xenium Prime 5K
How TGen drastically reduced Xenium per-sample costs for large cohorts with tumor microarrays
Data analysis
Xenium Onboard Analysis
The Xenium platform processes data in parallel with imaging and biochemistry cycles, allowing immediate access to interpretation-ready data without time-consuming steps post-run.
Xenium Ranger
With compatibility across multiple Linux distributions, the Xenium Ranger analysis pipelines make it easy to reanalyze your Onboard Analysis data and visualize it in Xenium Explorer.
Xenium Explorer
Xenium Explorer is a desktop application for Windows and MacOS that allows you to interactively visualize data generated by the Xenium Analyzer instrument.
Featured datasets
Related products
Xenium <500-gene panels
Ready-to-use and custom panels deliver mid-plex targeted gene expression and optional in-line protein expression for focused single cell spatial discovery.
Flex
Fixed RNA Profiling assay for comprehensive probe-based gene expression profiling with single cell resolution.
Visium HD 3'
Species agnostic 3' poly(A) capture-based spatial gene expression assay for expanded whole transcriptome discovery applications.