It provides the basis for comparative studies of cellular diversity in development, evolution, and diseases. This dataset reveals the molecular architecture of the neocortex and hippocampal formation, with a wide range of shared and unique cell types across areas. Isolated single cells were processed for RNA sequencing using SMART-Seq v4 and 10x chromium v2. We also collected cells without fluorescent labeling to sample non-neuronal cell types. Labeled cells were collected by fluorescence activated sorting (FACS) of single cells. To investigate the correspondence between transcriptomic types and neuronal projection properties, we collected cells labeled from retrograde injections for select combinations of target injection sites and dissection regions. For primary visual cortex (VISp) and anterolateral motor cortex (ALM), we sampled additional cells using driver lines that label more specific and rare types. For most brain regions, we isolated labeled cells from pan-GABAergic, pan-glutamatergic, and pan-neuronal transgenic lines. Samples were collected from fine dissections of brain regions from male and female mice. Towards that goal, we have generated a dataset that includes single cells from multiple cortical areas and the hippocampus. Our goal is to quantify the diversity of cell types in the adult mouse brain using large-scale single-cell transcriptomics.
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