We applied whole-brain Spatial Transcriptomics on mice to define the spatial organization of molecularly discrete subregions by capturing the gene expression signatures. We found that the molecular code contained sufficiently detailed information to directly deduce the complex spatial organization of the brain. This unsupervised molecular classification revealed new area and layer-specific subregions, for example in isocortex and hippocampus, and a new division of striatum. The whole-brain molecular atlas further supports the identification of the spatial origin of single neurons using their gene expression profile, and forms the foundation to define a minimal gene set - a brain palette - that is sufficient to spatially annotate the adult brain.
This video summarizes the methods we applied in order to establish a brain atlas based solely on the molecular signature.
This videos shows several subdivisions of the isocortex.
This videos shows several subdivisions of the striatum.