For most brain regions, we isolated labeled cells from pan-GABAergic, pan-glutamatergic, and pan-neuronal transgenic lines. Samples were collected from dissections of brain regions from ~8 week-old male and female mice, from a variety of transgenic lines. Towards that goal, we have generated a dataset that includes single-cell transcriptomes from multiple cortical areas and the hippocampal formation. Our goal is to define cell types in the adult mouse brain using large-scale single-cell transcriptomics. Nuclei were sampled from postmortem and neurosurgical (MTG only) donor brains and expression was profiled with SMART-Seq v4 or 10x Genomics Chromium Single Cell 3' v3 RNA-sequencing.Ĭell Diversity in the Mouse Cortex and Hippocampus Individual layers of cortex were dissected from tissues covering the middle temporal gyrus (MTG), anterior cingulate gyrus (CgGr), primary visual cortex (V1C), primary motor cortex (M1C), primary somatosensory cortex (S1C) and primary auditory cortex (A1C) derived from human brain, and nuclei were dissociated and sorted using the neuronal marker NeuN. To investigate the cellular diversity across human cortex, a low-bias approach to profile cell-type diversity was sought, constrained by the challenge of working with precious and limited tissue sources. Anatomical specificity is achieved by microdissecting tissue from defined brain areas, such as cortical layers or cell groups in LGd. This data set includes single cell and nuclear transcriptomic profiles, assayed from human and mouse brain regions. Single cell (or single nucleus) RNA sequencing (RNA-Seq) is a scalable approach to provide genome-wide expression profiles for thousands of cells. Additional data will be released regularly, building toward a complete picture of cellular diversity of the brain and how this diversity is conserved across species. This project seeks to characterize cortical diversity at the cellular level for several neuroanatomical areas in both mouse and human. Classifying these cells into types is one of the essential approaches to defining the diversity of the brain's building blocks. The mammalian brain is composed of many cell populations that differ based on their molecular, morphological, electrophysiological and functional characteristics. Protocols | Background Mouse, Human, Macaque - LGN (2018)īackground: Profiling Cellular Diversity in the Brain
#Mouse hippocampus anatomy download#
Whole Cortex & Hippocampus - 10x genomics (2020)Įxplore & Analyze Download Whole Cortex & Hippocampus - SMART-seq (2019)Įxplore & Analyze Download V1 & ALM - SMART-seq (2018)Įxplore & Analyze Genome Browser Download ACA and MOp - SMART-seq (2018) NOTE As of : The Mouse CTX-HPF datasets have been updated to reflect the final taxonomy and cell type annotations from the May 2021 paper in Cell here. Protocols | Background M1 - 10x genomics (2020)Įxplore & Analyze Genome Browser Download Multiple Cortical Areas - SMART-seq (2019)Įxplore & Analyze Download MTG - SMART-seq (2018)Įxplore & Analyze Genome Browser Download V1, ACC - SMART-seq (2018)