title: GSM9466818: Pax6 -/- optic vesicle; Mus musculus; OTHER
library_name: GSM9466818
library_construction_protocol: Samples were taken at E9.5 and embedded in OCT then fresh-frozen in an isopentane bath. OCT blocks were sectioned at 10 microns head-first using the transverse plane at -20 °C on standard frosted slides. Both optic vesicle and olfactory placode sections were taken from the same embryo to control for variability. Slides were then stored at -80 °C until downstream Visium HD protocol was performed. Sections were then stained with H&E, then visualized and transferred to Visium HD slides with the CytAssist. Both WT and Pax6-null sections for each tissue type (optic vesicle and olfactory placode) were processed on the same Visium HD slide to control for technical variation. Spatial gene expression data was captured using Visium Spatial HD V1 chemistry at a read depth of ~58 million reads. This resulted in an average of 2,114.8 reads per 8 µm per bin with a total of 15,385 genes detected.