Question: Is Visium compatible with cells or tissues expressing a reporter allele such as GFP?
Answer: We have performed limited in-house testing on imaging tissues that express a GFP reporter. Based upon results from these experiments, fluorescent GFP reporters show compatibility with the Visium assay, but we have not yet fully validated this technique therefore it is not currently supported. If you are interested in testing, we would recommend performing the fluorescent imaging immediately after the isopropanol drying step and before the H&E staining to avoid background autofluorescence from the H&E stain. We also recommend keeping the imaging time to a minimum.
An alternative solution to detecting the GFP signal directly on a Visium slide is to perform the fluorescent imaging on a subsequent section on a plain glass slide and overlay this with the H&E image generated from the Visium slide. Unfortunately, with this method you will only get a general GFP+ cell distribution, as opposed to a direct 1:1 relationship.