3D transcranial ultrasound localization microscopy in awake mice: protocol and open-source pipeline
Creators
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1.
Biomedical Imaging Lab
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2.
Université de Caen Normandie
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3.
California Institute of Technology
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4.
Hôpital Necker-Enfants Malades
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5.
Centre Hospitalier Universitaire de Caen
Abstract
We present an open-source code for 3D super-resolution ultrasound imaging. Open-3DULM was applied to transcranial imaging in habituated awake mice. Comparative analysis reveals that isoflurane anesthesia induces significant vasodilation and increased cerebral blood flow (CBF) in veins, while only a subset of arteries exhibits these effects compared to the awake state. This method could serve as a reference for developing new types of 3D vascular quantifications, particularly emphasizing the importance of awake and 3D imaging for accurate cerebral blood flow measurement in neuroscience research.
Copyright and License
© 2025, The Author(s). Open Access This article is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License, which permits any non-commercial use, sharing, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if you modified the licensed material. You do not have permission under this licence to share adapted material derived from this article or parts of it. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by-nc-nd/4.0/.
Data Availability
370 blocks of B-mode 3D cineloop for awake state was shared with this publication. The data are available at https://zenodo.org/records/14289690. Due to the large size of the dataset (2.5 TB), the remaining data will be shared upon request.
Code Availability
All codes are available under the Open-3DULM pipeline presented on a GitHub repository (https://github.com/Lab-Imag-Bio/Open-3DULM).
Files
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Additional details
Related works
- Describes
- Journal Article: https://rdcu.be/eqznw (ReadCube)
Dates
- Available
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2025-06-06Published online