Mouse Brain Architecture — Cell Type


  • Banerjee S et al. (2020) Semantic segmentation of microscopic neuroanatomical data by combining topological priors with encoder–decoder deep networks. Nat Mach Intell. 2020;2(10):585–594. [Link]

  • BRAIN Initiative Cell Census Network (BICCN). A multimodal cell census and atlas of the mammalian primary motor cortex. Biorxiv. 2020;2020.10.19.343129. [Link]

  • Matho KS et al. (2020) Genetic dissection of glutamatergic neuron subpopulations and developmental trajectories in the cerebral cortex. Biorxiv. 2021;2020.04.22.054064. [Link]
  • Muñoz-Castañeda R et al. (2020) Cellular Anatomy of the Mouse Primary Motor Cortex. Biorxiv. 2020;2020.10.02.323154. [Link]
  • Tward D et al. (2020) Solving the where problem in neuroanatomy: a generative framework with learned mappings to register multimodal, incomplete data into a reference brain. Biorxiv. 2020 Mar 22;39:2020.03.22.002618. [Link]
  • Wang D et al. (2020) Detection and skeletonization of single neurons and tracer injections using topological methods. Arxiv. 2020 Mar 20;cs.CV. [Link]


This is a portal for data generated across multiple collaborative laboratories as part of the Brain Initiative Cell-Census Network for mapping neuronal cell-type specific information in the mouse brain.

The data sets include (i) brain-wide spatial distributions of the somata of specific neuronal types (ii) cell-type specific projection data (iii) morphology of individual neurons of specific types and (iv) atlas-mapped single-nucleus RNA sequencing data.