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Fully automated dual-resolution serial optical coherence tomography aimed at diffusion MRI validation in whole mouse brains

Joël Lefebvre, Patrick Delafontaine-Martel, Philippe Pouliot, Hélène Girouard, Maxime Descoteaux and Frédéric Lesage

Article (2018)

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Cite this document: Lefebvre, J., Delafontaine-Martel, P., Pouliot, P., Girouard, H., Descoteaux, M. & Lesage, F. (2018). Fully automated dual-resolution serial optical coherence tomography aimed at diffusion MRI validation in whole mouse brains. Neurophotonics, 5(4). doi:10.1117/1.nph.5.4.045004
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An automated dual-resolution serial optical coherence tomography (2R-SOCT) scanner is developed. The serial histology system combines a low-resolution ( 25 mu m / voxel ) 3 x OCT with a high-resolution ( 1.5 mu m / voxel ) 40 x OCT to acquire whole mouse brains at low resolution and to target specific regions of interest (ROIs) at high resolution. The 40 x ROIs positions are selected either manually by the microscope operator or using an automated ROI positioning selection algorithm. Additionally, a multimodal and multiresolution registration pipeline is developed in order to align the 2R-SOCT data onto diffusion MRI (dMRI) data acquired in the same ex vivo mouse brains prior to automated histology. Using this imaging system, 3 whole mouse brains are imaged, and 250 high-resolution 40 x three-dimensional ROIs are acquired. The capability of this system to perform multimodal imaging studies is demonstrated by labeling the ROIs using a mouse brain atlas and by categorizing the ROIs based on their associated dMRI measures. This reveals a good correspondence of the tissue microstructure imaged by the high-resolution OCT with various dMRI measures such as fractional anisotropy, number of fiber orientations, apparent fiber density, orientation dispersion, and intracellular volume fraction.

Uncontrolled Keywords

diffusion MRI; multimodal registration; optical coherence tomography; serial histology; whole mouse brain imaging

Open Access document in PolyPublie
Subjects: 1900 Génie biomédical > 1900 Génie biomédical
1900 Génie biomédical > 1901 Technologie biomédicale
Department: Département de génie électrique
Institut de génie biomédical
Research Center: Autre
Funders: Fonds de Recherche du Québec-Nature et Technologies, Canadian Institutes of Health Research (CIHR) / Instituts de recherche en santé du Canada (IRSC), NSERC/CRSNG, Institutional Université de Sherbrooke Research Chair in Neuroinformatics
Grant number: RGPIN- 2014-06089
Date Deposited: 17 Dec 2021 11:33
Last Modified: 18 Dec 2021 01:20
PolyPublie URL: https://publications.polymtl.ca/4994/
Document issued by the official publisher
Journal Title: Neurophotonics (vol. 5, no. 4)
Publisher: SPIE
Official URL: https://doi.org/10.1117/1.nph.5.4.045004


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