Exploration and visualization of connectivity in the adult mouse brain

David Feng, Chris Lau, Lydia Ng, Yang Li, Leonard Kuan, Susan M. Sunkin, Chinh Dang, Michael Hawrylycz

Research output: Contribution to journalArticlepeer-review

14 Scopus citations

Abstract

The Allen Mouse Brain Connectivity Atlas is a mesoscale whole brain axonal projection atlas of the C57Bl/6J mouse brain. All data were aligned to a common template in 3D space to generate a comprehensive and quantitative database of inter-areal and cell-type-specific projections. A suite of computational tools were developed to search and visualize the projection labeling experiments, available at http://connectivity.brain-map.org. We present three use cases illustrating how these publicly-available tools can be used to perform analyses of long range brain region connectivity. The use cases make extensive use of advanced visualization tools integrated with the atlas including projection density histograms, 3D computed anterograde and retrograde projection paths, and multi-specimen projection composites. These tools offer convenient access to detailed axonal projection information in the adult mouse brain and the ability to perform data analysis and visualization of projection fields and neuroanatomy in an integrated manner.

Original languageEnglish
Pages (from-to)90-97
Number of pages8
JournalMethods
Volume73
DOIs
StatePublished - Feb 1 2015

Keywords

  • Digital atlas
  • Mouse connectivity atlas
  • Neuronal projection
  • Virtual tractography

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