Whole mouse brain connectomics.

Journal Article (Journal Article)

Methods have been developed to allow quantitative connectivity of the whole fixed mouse brain by means of magnetic resonance imaging (MRI). We have translated what we have learned in clinical imaging to the very special domain of the mouse brain. Diffusion tensor imaging (DTI) of perfusion fixed specimens can now be performed with spatial resolution of 45 μm3 , that is, voxels that are 21,000 times smaller than the human connectome protocol. Specimen preparation has been optimized through an active staining protocol using a Gd chelate. Compressed sensing has been integrated into high performance reconstruction and post processing pipelines allowing acquisition of a whole mouse brain connectome in <12 hr. The methods have been validated against retroviral tracer studies. False positive tracts, which are especially problematic in clinical studies, have been reduced substantially to ~28%. The methods have been streamlined to provide high-fidelity, whole mouse brain connectomes as a routine study. The data package provides holistic insight into the mouse brain with anatomic definition at the meso-scale, quantitative volumes of subfields, scalar DTI metrics, and quantitative tractography.

Full Text

Duke Authors

Cited Authors

  • Allan Johnson, G; Wang, N; Anderson, RJ; Chen, M; Cofer, GP; Gee, JC; Pratson, F; Tustison, N; White, LE

Published Date

  • September 1, 2019

Published In

Volume / Issue

  • 527 / 13

Start / End Page

  • 2146 - 2157

PubMed ID

  • 30328104

Pubmed Central ID

  • PMC6467764

Electronic International Standard Serial Number (EISSN)

  • 1096-9861

Digital Object Identifier (DOI)

  • 10.1002/cne.24560


  • eng

Conference Location

  • United States