ArticleNature communications2016
aMAP is a validated pipeline for registration and segmentation of high-resolution mouse brain data.
Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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Who cites it
64 citing papers in PubMed.
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- Brainwide blood volume reflects opposing neural populations.bioRxiv : the preprint server for biology · 2025Article
- Mapping brain-wide activity networks: brainways as a tool for neurobiological discovery.Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology · 2025Article
- Article
- Layer 6 corticocortical neurons are a major route for intra- and interhemispheric feedback.eLife · 2025Article
- Bell Jar: A Semiautomated Registration and Cell Counting Tool for Mouse Neurohistology Analysis.eNeuro · 2025Article
- An extended and improved CCFv3 annotation and Nissl atlas of the entire mouse brain.Imaging neuroscience (Cambridge, Mass.) · 2025Article
- Software and pipelines for registration and analyses of rodent brain image data in reference atlas space.Frontiers in neuroinformatics · 2025Article
- Overcoming off-target optical stimulation-evoked cortical activity in the mouse brainiScience · 2024Article
- SOLID: minimizing tissue distortion for brain-wide profiling of diverse architectures.Nature communications · 2024Article
- An arginine-rich nuclear localization signal (ArgiNLS) strategy for streamlined image segmentation of single cells.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Connecto-informatics at the mesoscale: current advances in image processing and analysis for mapping the brain connectivity.Brain informatics · 2024Review
- Revealing intact neuronal circuitry in centimeter-sized formalin-fixed paraffin-embedded brain.eLife · 2024Article
- Article
- A primary sensory cortical interareal feedforward inhibitory circuit for tacto-visual integration.Nature communications · 2024Article
- A deep learning classification task for brain navigation in rodents using micro-Doppler ultrasound imaging.Heliyon · 2024Article
- The Locare workflow: representing neuroscience data locations as geometric objects in 3D brain atlases.Frontiers in neuroinformatics · 2024Article
- An arginine-rich nuclear localization signal (ArgiNLS) strategy for streamlined image segmentation of single-cells.bioRxiv : the preprint server for biology · 2023Article
4 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors.
Funding
Abstract
The validation of automated image registration and segmentation is crucial for accurate and reliable mapping of brain connectivity and function in three-dimensional (3D) data sets. While validation standards are necessarily high and routinely met in the clinical arena, they have to date been lacking for high-resolution microscopy data sets obtained from the rodent brain. Here we present a tool for optimized automated mouse atlas propagation (aMAP) based on clinical registration software (NiftyReg) for anatomical segmentation of high-resolution 3D fluorescence images of the adult mouse brain. We empirically evaluate aMAP as a method for registration and subsequent segmentation by validating it against the performance of expert human raters. This study therefore establishes a benchmark standard for mapping the molecular function and cellular connectivity of the rodent brain.
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