Atlas registration for edema-corrected MRI lesion volume in mouse stroke models

Koch, Stefan; Mueller, Susanne; Foddis, Marco; Bienert, Thomas; von Elverfeldt, Dominik; Knab, Felix; Farr, Tracy D.; Bernard, Ren�; Dopatka, Monika; Rex, Andr�; Dirnagl, Ulrich; Harms, Christoph; Boehm-Sturm, Philipp

doi:10.1177/0271678X17726635

Atlas registration for edema-corrected MRI lesion volume in mouse stroke models

Koch, Stefan; Mueller, Susanne; Foddis, Marco; Bienert, Thomas; von Elverfeldt, Dominik; Knab, Felix; Farr, Tracy D.; Bernard, Ren�; Dopatka, Monika; Rex, Andr�; Dirnagl, Ulrich; Harms, Christoph; Boehm-Sturm, Philipp

Authors

Stefan Koch

Susanne Mueller

Marco Foddis

Thomas Bienert

Dominik von Elverfeldt

Felix Knab

Tracy D. Farr

Ren� Bernard

Monika Dopatka

Andr� Rex

Ulrich Dirnagl

Christoph Harms

Philipp Boehm-Sturm

Abstract

Lesion volume measurements with magnetic resonance imaging are widely used to assess outcome in rodent models of stroke. In this study, we improved a mathematical framework to correct lesion size for edema which is based on manual delineation of the lesion and hemispheres. Furthermore, a novel MATLAB toolbox to register mouse brain MR images to the Allen brain atlas is presented. Its capability to calculate edema-corrected lesion size was compared to the manual approach. Automated image registration performed equally well in in a mouse middle cerebral artery occlusion model (Pearson r=0.976, p=2.265e-11). Information encapsulated in the registration was used to generate maps of edema induced tissue volume changes. These showed discrepancies to simplified tissue models underlying the manual approach. The presented techniques provide biologically more meaningful, voxel-wise biomarkers of vasogenic edema after stroke.

Citation

Koch, S., Mueller, S., Foddis, M., Bienert, T., von Elverfeldt, D., Knab, F., …Boehm-Sturm, P. (in press). Atlas registration for edema-corrected MRI lesion volume in mouse stroke models. Journal of Cerebral Blood Flow and Metabolism, https://doi.org/10.1177/0271678X17726635

Journal Article Type	Article
Acceptance Date	Jul 22, 2017
Online Publication Date	Aug 22, 2017
Deposit Date	Aug 24, 2017
Publicly Available Date	Aug 24, 2017
Journal	Journal of Cerebral Blood Flow & Metabolism
Print ISSN	0271-678X
Electronic ISSN	1559-7016
Publisher	SAGE Publications
Peer Reviewed	Peer Reviewed
DOI	https://doi.org/10.1177/0271678X17726635
Public URL	https://nottingham-repository.worktribe.com/output/878416
Publisher URL	http://journals.sagepub.com/doi/10.1177/0271678X17726635