Xenium Analyzer

Gene Expression Panels

Xenium Explorer

Which Spatial Omic Platform to Use?

Xenium Slide

Xenium Run Time Estimates by Assay

Xenium FAQs

General Questions

• Is RNA quality assessment (either by RIN or DV200) important for Xenium? (for RNA integrity test, please contact Genomics Core at Case Western Reserve University)
• Can you design your own Panels for Xenium assays?
• Can you provide data comparison between Xenium v1 and Xenium Prime 5K assays?
• What is the estimated instrument run time for Xenium v1 assay vs. Xenium Prime 5K assay?
• How do I process the data retrieved from Xenium Analyzer?

Sample Preparation

• How do I determine if my tissue block will be compatible with Xenium?
• Do you have recommendations for FFPE tissue fixation for Xenium? (Watch a quick TRAINING VIDEO for FFPE / FF tissue prep on Xenium slide)
• How can I avoid mRNA degradation during sample preparation and slide processing for Xenium In Situ?
• Is Xenium compatible with tissues stained with fluorescent dyes?
• Can cells be adhered to Xenium slides to obtain gene expression data?
• Do you have recommendations for sectioning TMAs for Xenium?
• How does H&E staining before and after Xenium run compare?

Xenium Slides

• How should unused Xenium slides be stored?
• How do I ship Xenium slides with tissue sections?
• How can processed Xenium slides be stored prior to a Xenium Analyzer run?
• Can I ship slides after the Xenium assay workflow?
• How can I more easily visualize the fiducial frame on Xenium slides?
• What should I do if I cover fiducials on the Xenium slide?
• Is it possible to reset a Xenium slide if tissue is placed incorrectly?

Manuals

• Xenium Slide Cassette Assembly
• FFPE Sample Preparation
• Fresh Frozen Sample Preparation
• IF and H&E Staining Post-Xenium Run
• Region selection (FOVs) guidelines during Xenium run set-up (extracted from manual #CG000584 Rev. F, June 2024)

Seminars

• Xenium In Situ Launch Seminar at Case Western Reserve University (June 17, 2024 – passcode: 8+!#vCG)