ArticleNeuroinformatics2023
Multimodal 3D Mouse Brain Atlas Framework with the Skull-Derived Coordinate System.
Article in Neuroinformatics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 19 citations in OpenAlex.
- Hippocampal CA3 connectomics reveals a gradient of mossy fiber inputs and selective feedforward inhibition onto pyramidal cells.Nature neuroscience · 2026Article
- Ventral pallidal GABAergic neurons control hedonic feeding and obesity.bioRxiv : the preprint server for biology · 2026Article
- Large-scale electrophysiology at single-spike resolution.Nature reviews. Neuroscience · 2026Review
- The ANTsX ecosystem for mapping the mouse brain.Nature communications · 2025Article
- DeMBA: a developmental atlas for navigating the mouse brain in space and time.Nature communications · 2025Article
- The Duke Mouse Brain Atlas: MRI and light sheet microscopy stereotaxic atlas of the mouse brain.Science advances · 2025Article
- Modular strategies for spatial mapping of diverse cell type data of the mouse brain.Research square · 2025Article
- Construction of a Multimodal 3D Atlas for a Micrometer-Scale Brain-Computer Interface Based on Mixed Reality.Current medical science · 2025Article
- Article
- An extended and improved CCFv3 annotation and Nissl atlas of the entire mouse brain.Imaging neuroscience (Cambridge, Mass.) · 2025Article
- Developmental mouse brain common coordinate framework.Nature communications · 2024Article
- Article
- Fine-tuning TrailMap: The utility of transfer learning to improve the performance of deep learning in axon segmentation of light-sheet microscopy images.bioRxiv : the preprint server for biology · 2023Article
- Developmental Mouse Brain Common Coordinate Framework.bioRxiv : the preprint server for biology · 2023Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Magnetic resonance imaging (MRI) and light-sheet fluorescence microscopy (LSFM) are technologies that enable non-disruptive 3-dimensional imaging of whole mouse brains. A combination of complementary information from both modalities is desirable for studying neuroscience in general, disease progression and drug efficacy. Although both technologies rely on atlas mapping for quantitative analyses, the translation of LSFM recorded data to MRI templates has been complicated by the morphological changes inflicted by tissue clearing and the enormous size of the raw data sets. Consequently, there is an unmet need for tools that will facilitate fast and accurate translation of LSFM recorded brains to in vivo, non-distorted templates. In this study, we have developed a bidirectional multimodal atlas framework that includes brain templates based on both imaging modalities, region delineations from the Allen's Common Coordinate Framework, and a skull-derived stereotaxic coordinate system. The framework also provides algorithms for bidirectional transformation of results obtained using either MR or LSFM (iDISCO cleared) mouse brain imaging while the coordinate system enables users to easily assign in vivo coordinates across the different brain templates.
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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.