Questions & Answers
For documentation, software and datasets, please visit
SupportIn Situ Gene Expression
Subcellular profiling of targeted features from fresh frozen or FFPE tissues.
Xenium Analyzer
Xenium Analyzer
- How do I transfer data via USB on Xenium Analyzer instruments on SW version 1.8?
- How can I automate file transfer after a Xenium run completes?
- How are shared network drives mounted on the Xenium Analyzer instrument?
- How do I thaw Xenium Decoding Module B prior to a Xenium Analyzer run?
- What is the purpose of a Xenium Analyzer Readiness Test and how can I perform it?
- Is internet connectivity required for the Xenium Analyzer?
General
- Can different panels be run sequentially on the same tissue section?
- Can different panels be selected on the same Xenium Analyzer run?
- Can different tissue types be run on a single Xenium Slide?
- How can Xenium slides be stored prior to a Xenium Analyzer run?
- How do I ship slides after the Xenium assay workflow
- How much does the post Xenium-Analyzer run H&E differ from H&E on totally unprocessed tissue?
Software
Tissue and Sample Preparation
- Are fixed tissues embedded in OCT compatible with Xenium?
- Are alternative autofluorescence quenching protocols compatible with Xenium?
- How can I avoid mRNA degradation during sample preparation and slide processing for Xenium In Situ?
- How do I ship Xenium slides with tissue sections?
- How do I study large tissue sections using Xenium?
- How can I more easily visualize the fiducial frame on Xenium slides?
Tissue-specific Tips and Tricks
- Is bone compatible with Xenium In Situ Gene Expression?
- Is bone-derived soft tissue compatible with Xenium In Situ Gene Expression?
- Can cells be adhered to Xenium slides to obtain gene expression data?
- Do you have recommendations for sectioning skin for Xenium?
- Do you have recommendations for organoids for Xenium?
- Do you have recommendations for sectioning TMAs for Xenium?
Tissue Preparation - FFPE
- Do you have recommendations for FFPE tissue fixation for Xenium?
- Do you have tips and tricks for pre-fixation tissue handling for Xenium?
- How does delayed fixation impact Xenium performance?
- How should I store Xenium slides once FFPE tissue sections have been placed?
- How to generate tissue arrays for Xenium?
Tissue Preparation - Fresh Frozen
Reagents
- Can I substitute MilliQ water for nuclease-free water in the Xenium workflow?
- Can I use 100% Tween 20 diluted to 10% Tween 20 for Xenium?
- Can I use alternative third-party reagents for Xenium?
- Can I use Neo-Clear as an alternative to xylene for Deparaffinization with Xenium In Situ Gene Expression?
- Does the change in Xenium custom probe panel resuspension buffer or volume impact Xenium performance?
- What alternative TE buffers can be used for Xenium?
Imaging
- Does Xenium Analyzer acquire multiple Z stacks?
- For H&E performed after a Xenium Analyzer run, what imaging requirements are recommended?
- What kind of microscope does the Xenium Analyzer use?
- What is the composition of the Xenium Analyzer imaging buffer?
- How does the optics system work on the Xenium Analyzer?