ArticleNeurophotonics2017
Whole mouse brain imaging using optical coherence tomography: reconstruction, normalization, segmentation, and comparison with diffusion MRI.
Article in Neurophotonics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 34 citations in OpenAlex.
- Scaling up polarization-sensitive optical coherence tomography to image the whole macaque brain.bioRxiv : the preprint server for biology · 2026Article
- FUSION: A fast and uniform processing framework for whole-brain optical scattering tomography images.bioRxiv : the preprint server for biology · 2026Article
- Multi-Scale Label-Free Human Brain Imaging with Integrated Serial Sectioning Polarization Sensitive Optical Coherence Tomography and Two-Photon Microscopy.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Automated robot-assisted wide-field optical coherence tomography using structured light camera.Biomedical optics express · 2023Article
- Depth-dependent attenuation and backscattering characterization of optical coherence tomography by stationary iterative method.Journal of biomedical optics · 2023Article
- Integrating multimodality magnetic resonance imaging to the Allen Mouse Brain Common Coordinate Framework.NMR in biomedicine · 2023Article
- Merged magnetic resonance and light sheet microscopy of the whole mouse brain.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Volumetric Characterization of Microvasculature in Ex Vivo Human Brain Samples By Serial Sectioning Optical Coherence Tomography.IEEE transactions on bio-medical engineering · 2022Article
- Review
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- Neurophotonic tools for microscopic measurements and manipulation: status report.Neurophotonics · 2022Article
- Glass-brain mapping provides an adjunct tool for structural analysis in mouse models of neurodevelopmental disease.Neuroimage. Reports · 2021Article
- Article
- Imaging the aged brain: pertinence and methods.Quantitative imaging in medicine and surgery · 2019Review
- Rapid volumetric optoacoustic imaging of neural dynamics across the mouse brain.Nature biomedical engineering · 2019Article
- Fully automated dual-resolution serial optical coherence tomography aimed at diffusion MRI validation in whole mouse brains.Neurophotonics · 2018Article
- Serial optical coherence scanning reveals an association between cardiac function and the heart architecture in the aging rodent heart.Biomedical optics express · 2017Article
- Spectroscopic imaging with spectral domain visible light optical coherence microscopy in Alzheimer's disease brain samples.Biomedical optics express · 2017Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
An automated massive histology setup combined with an optical coherence tomography (OCT) microscope was used to image a total of [Formula: see text] whole mouse brains. Each acquisition generated a dataset of thousands of OCT volumetric tiles at a sampling resolution of [Formula: see text]. This paper describes techniques for reconstruction and segmentation of the sliced brains. In addition to the measured OCT optical reflectivity, a single scattering photon model was used to compute the attenuation coefficients within each tissue slice. Average mouse brain templates were generated for both the OCT reflectivity and attenuation contrasts and were used with an [Formula: see text]-tissue segmentation algorithm. To better understand the brain tissue OCT contrast origin, one of the mouse brains was acquired using dMRI and coregistered to its corresponding assembled brain. Our results indicate that the optical reflectivity in a fiber bundle varies with its orientation, its fiber density, and the number of fiber orientations it contains. The OCT mouse brain template generation and coregistration to dMRI data demonstrate the potential of this massive histology technique to pursue cross-sectional, multimodal, and multisubject investigations of small animal brains.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.