Single-cell spatial transcriptomic profiling of 3xTg-AD mouse brains following fecal microbiota transplantation from stroke and healthy human donors

Presymptomatic 3xTg-AD mice received antibiotic pretreatment and oral-gavage FMT at 3 months of age, with brains collected at 6.5 months. FFPE sagittal sections (5 µm) were profiled on the Bruker CosMx Spatial Molecular Imager using the 1,000-plex Mouse Neuroscience panel. 9 sections were collected (n=3 mice per group: naive, healthy-FMT, stroke-FMT).

Per-sample flat files include the cell-by-target expression matrix, cell metadata, FOV positions, and segmentation polygons.