ArticleNature methods2022
Cross-modal coherent registration of whole mouse brains.
Article in Nature methods, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed, 85 citations in OpenAlex.
- A framework for comparative analysis of human and mouse cortical neuron dendrites in corresponding brain regions.Nature neuroscience · 2026Article
- activeDISCO enables large-scale exploration of human brain anatomy by light sheet microscopy.Communications biology · 2026Article
- A mouse brain atlas based on dendritic microenvironments.Nature neuroscience · 2026Article
- Confocal Airy beam oblique light-sheet tomography for brain-wide cell type distribution and morphology.Nature methods · 2025Article
- Dendritome mapping reveals the spatial organization of striatal neuron morphology.Nature neuroscience · 2025Article
- Reconstruction of a connectome of single neurons in mouse brains by cross-validating multi-scale multi-modality data.Nature methods · 2025Article
- Solving the where problem and quantifying geometric variation in neuroanatomy using generative diffeomorphic mapping.Nature communications · 2025Article
- The ANTsX ecosystem for mapping the mouse brain.Nature communications · 2025Article
- Integrative functional optical imaging approaches: Optics, microfluidics, and machine learning for neuroscience in organoids and small-animal models.Biophysical journal · 2025Review
- NeuroXiv: AI-powered open databasing and dynamic mining of brain-wide neuron morphometry.Nature methods · 2025Article
- The Duke Mouse Brain Atlas: MRI and light sheet microscopy stereotaxic atlas of the mouse brain.Science advances · 2025Article
- A Multi-Scale Neuron Morphometry Dataset from Peta-voxel Mouse Whole-Brain Images.Scientific data · 2025Article
- Modular strategies for spatial mapping of diverse cell type data of the mouse brain.Research square · 2025Article
- Connectivity of single neurons classifies cell subtypes in mouse brains.Nature methods · 2025Article
- RegBoost: Enhancing mouse brain image registration using geometric priors and Laplacian interpolation.NeuroImage · 2025Article
- RDLR: A Robust Deep Learning-Based Image Registration Method for Pediatric Retinal Images.Journal of imaging informatics in medicine · 2024Article
- Neuronal diversity and stereotypy at multiple scales through whole brain morphometry.Nature communications · 2024Article
- BIFROST: A method for registering diverse imaging datasets of theProceedings of the National Academy of Sciences of the United States of America · 2024Article
- Deep coupled registration and segmentation of multimodal whole-brain images.Bioinformatics (Oxford, England) · 2024Article
- Developmental mouse brain common coordinate framework.Nature communications · 2024Article
Corrections and comments
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Authors and funding
24 authors at 11 institutions in 2 countries.
Funding
Abstract
Recent whole-brain mapping projects are collecting large-scale three-dimensional images using modalities such as serial two-photon tomography, fluorescence micro-optical sectioning tomography, light-sheet fluorescence microscopy, volumetric imaging with synchronous on-the-fly scan and readout or magnetic resonance imaging. Registration of these multi-dimensional whole-brain images onto a standard atlas is essential for characterizing neuron types and constructing brain wiring diagrams. However, cross-modal image registration is challenging due to intrinsic variations of brain anatomy and artifacts resulting from different sample preparation methods and imaging modalities. We introduce a cross-modal registration method, mBrainAligner, which uses coherent landmark mapping and deep neural networks to align whole mouse brain images to the standard Allen Common Coordinate Framework atlas. We build a brain atlas for the fluorescence micro-optical sectioning tomography modality to facilitate single-cell mapping, and used our method to generate a whole-brain map of three-dimensional single-neuron morphology and neuron cell types.
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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.