Mouse Whole-Brain Spatial Transcriptomics Atlas (Ortiz et al., 2020)

The Mouse Whole-Brain Spatial Transcriptomics Atlas (3d_40slices_STdata.zip) from Ortiz et al. (2020) includes 15,326 genes profiled across 34,053 tissue locations from 75 coronal brain slices. Integrated with Allen Brain Atlas neuroanatomical annotations, this dataset enables unbiased identification of molecularly distinct subregions. We analyze it with the MM-test to assess method performance in complex whole-brain settings. The file Mouse_brain_pre_validation_data.RData provides a 10X Genomics Visium posterior mouse brain datasetwith 3,355 spots and 2,810 genes, used for validation.