Questions & Answers
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SupportHD Spatial Gene Expression
Common questions related to the Visium CytAssist instrument, tissue preparation, library construction, sequencing, and analysis using FFPE, Fresh Frozen, & Fixed Frozen tissue sections.
General
- Should I select FFPE, Fresh Frozen, or Fixed Frozen for my Visium HD Spatial Gene Expression experiment?
- Where are the validated stopping points when processing FFPE tissues during the Visium HD Spatial Gene Expression assay workflow?
- What is the expected dropout rate for spatial barcoded squares within the Visium HD capture area?
- What tissue types have been tested with the Visium HD Spatial Gene Expression assay?
- What glass slides are compatible with the Visium HD Spatial Gene Expression assay?
- What thermal cyclers are recommended for use with the Visium HD assay?
Visium CytAssist Instrument
Tissue Preparation, Staining, & Imaging
- What best practices should be considered when preparing FFPE samples for the Visium HD Spatial Gene Expression assay?
- Can Mayer’s formulation instead of Gill II Hematoxylin be used for H&E Staining with Visium HD?
- What section thickness is compatible with the Visium HD Spatial Gene Expression assay?
Library Construction
Sequencing
Analysis Software
- How do I Compare the Sensitivity of Visium HD to Visium v2?
- How do I generate a cloupe file for Visium HD Gene Expression data binned at a size other than 8 µm x 8 µm?
- How do I calculate the percentage of the capture area covered, so that I can determine the recommended sequencing depth for Visium HD Spatial Gene Expression libraries?