GSM9169427: 5XFAD_ROI34; Mus musculus; OTHER
Tissues were fixed with 10% Neutral buffered formalin and embedded into paraffin for FFPE blocks. Tissue sections (4 µm)  were incubated with the NanoString mouse Whole Transcriptome Atlas (WTA) panel probes overnight, then stained with D54D2 (CST 8243S, AF 594 secondary),   Olig2 (R&D AF2418-SP, AF647 secondary ) and the DNA stain Syto83 (Thermo S11364) as morphology markers to visualize tissue architecture. Stained slides were loaded onto the GeoMx instrument and scanned for region of interest (ROI) selection. Automatic segmentation of the ROIs based on Olig2 expression were used to define areas of interest (AOIs), allowing for the separation of Olig2-expressing cells from surounding cells. A total of 95 AOIs were exposed to 385 nm (UV) light, releasing the index oligonucleotides which were collected with a microcapillary and deposited into individual wells of a 96-well plate for subsequent processing. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences, according to manufacturer's instruction.