ArticleNeuroImage2021
Comparison of diffusion MRI and CLARITY fiber orientation estimates in both gray and white matter regions of human and primate brain.
Article in NeuroImage, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 39 citations in OpenAlex.
- Bridging the microstructural gap in human connectomics using hierarchical phase-contrast tomography as a reference for diffusion MRI in the human brain.bioRxiv : the preprint server for biology · 2026Article
- Validation of structure tensor analysis for orientation estimation in brain tissue microscopy.Journal of neuroscience methods · 2025Article
- Advances in tissue optical clearing for 3D imaging in large animal.Frontiers of optoelectronics · 2025Review
- Considerations and recommendations from the ISMRM Diffusion Study Group for preclinical diffusion MRI: Part 3-Ex vivo imaging: Data processing, comparisons with microscopy, and tractography.Magnetic resonance in medicine · 2025Review
- Article
- Validation of Structure Tensor Analysis for Orientation Estimation in Brain Tissue Microscopy.bioRxiv : the preprint server for biology · 2025Article
- Non-parametric prediction of brain MRI microstructure using transfer learning.Imaging neuroscience (Cambridge, Mass.) · 2025Article
- Three-dimensional fiber orientation mapping of ex vivo human brain at micrometer resolution.Npj imaging · 2025Article
- NerveTracker: a Python-based software toolkit for visualizing and tracking groups of nerve fibers in serial block-face microscopy with ultraviolet surface excitation images.Journal of biomedical optics · 2024Article
- Structural projections to the nucleus accumbens link to impulsive components of human risk preference.Imaging neuroscience (Cambridge, Mass.) · 2024Article
- Multiscale label-free imaging of myelin in human brain tissue with polarization-sensitive optical coherence tomography and birefringence microscopy.Biomedical optics express · 2023Article
- Article
- Using light and X-ray scattering to untangle complex neuronal orientations and validate diffusion MRI.eLife · 2023Article
- Review
- Brain tract structure predicts relapse to stimulant drug use.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Multimodal Brain Imaging Fusion for the White-Matter Fiber Architecture in the Human Brain.Neuroscience bulletin · 2022Article
- Additional fiber orientations in the sagittal stratum-noise or anatomical fine structure?Brain structure & function · 2022Article
- Brain virtual histology with X-ray phase-contrast tomography Part I: whole-brain myelin mapping in white-matter injury models.Biomedical optics express · 2022Article
- Investigating the contribution of cytoarchitecture to diffusion MRI measures in gray matter using histology.Frontiers in neuroimaging · 2022Article
- Diffusion MRI and anatomic tracing in the same brain reveal common failure modes of tractography.NeuroImage · 2021Article
Corrections and comments
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Authors and funding
16 authors at 7 institutions in 4 countries.
Funding
Abstract
Diffusion MRI (dMRI) represents one of the few methods for mapping brain fiber orientations non-invasively. Unfortunately, dMRI fiber mapping is an indirect method that relies on inference from measured diffusion patterns. Comparing dMRI results with other modalities is a way to improve the interpretation of dMRI data and help advance dMRI technologies. Here, we present methods for comparing dMRI fiber orientation estimates with optical imaging of fluorescently labeled neurofilaments and vasculature in 3D human and primate brain tissue cuboids cleared using CLARITY. The recent advancements in tissue clearing provide a new opportunity to histologically map fibers projecting in 3D, which represents a captivating complement to dMRI measurements. In this work, we demonstrate the capability to directly compare dMRI and CLARITY in the same human brain tissue and assess multiple approaches for extracting fiber orientation estimates from CLARITY data. We estimate the three-dimensional neuronal fiber and vasculature orientations from neurofilament and vasculature stained CLARITY images by calculating the tertiary eigenvector of structure tensors. We then extend CLARITY orientation estimates to an orientation distribution function (ODF) formalism by summing multiple sub-voxel structure tensor orientation estimates. In a sample containing part of the human thalamus, there is a mean angular difference of 19
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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.