A single cell SPAtiotemporal transcriptomic atlas to unveil CERebellar development and function in mouse -SPACER -

This dataset contains spatial transcriptomics data generated from fresh-frozen mouse cerebellar tissue sections collected at postnatal day 0 (P0), postnatal day 7 (P7), and postnatal day 60 (P60). Parasagittal cerebellar sections were cut at a thickness of 10 µm using a cryostat and processed using the HybISS-cDNA spatial transcriptomics method as described previously (doi: 10.1093/nar/gkaa792). A custom-designed panel of target genes was used to identify distinct cerebellar astrocyte populations and their progenitors across cerebellar development (doi: 10.1101/2025.07.17.665323). Imaging was performed using a Zeiss Axio Imager Z2 microscope equipped with a Hamamatsu, ORCA-Flash4.0 LT Plus scientific CMOS camera and a 40X objective. The dataset includes processed spatial transcriptomics outputs, including transcript coordinates, gene identity assignments, and DAPI microscopy images, enabling the analysis of spatial gene expression patterns across cerebellar development. The dataset was generated within the framework of the project PID15185 – SPACER (A single cell SPAtiotemporal transcriptomic atlas to unveil CERebellar development and function in mouse) through the in situ sequencing (ISS) facility at SciLifeLab in Sweden, supported by the EASI-Genomics Transnational Access Call 3 (Spring 2021). EASI-Genomics received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 824110.