ArticleNature methods2011
BrainAligner: 3D registration atlases of Drosophila brains.
Article in Nature methods, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers.
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Who cites it
80 citing papers in PubMed.
- Similarity maps and hierarchical clustering for annotating FT-IR spectral images.BMC bioinformatics · 2013Trial
- Hunger recruits a parallel circuit encoding alcohol reward.Current biology : CB · 2026Article
- A comparative brain atlas in the Mexican cavefish identifies widespread changes in cellular composition and gene expression.bioRxiv : the preprint server for biology · 2026Article
- MALDI matrix sublimation versus spray coating in the FluoMALDI imaging pipeline.Analytica chimica acta · 2025Article
- Hunger Recruits a Parallel Circuit Encoding Alcohol Reward.bioRxiv : the preprint server for biology · 2025Article
- 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
- LYNSU: automated 3D neuropil segmentation of fluorescent images forFrontiers in neuroinformatics · 2024Article
- FluoMALDI Microscopy: Matrix Co-Crystallization Simultaneously Enhances Fluorescence and MALDI Imaging.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Zebrafish brain atlases: a collective effort for a tiny vertebrate brain.Neurophotonics · 2023Article
- Full-Spectrum Neuronal Diversity and Stereotypy through Whole Brain Morphometry.Research square · 2023Article
- An ImageJ-based tool for three-dimensional registration between different types of microscopic images.Development, growth & differentiation · 2023Article
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- Cross-modal coherent registration of whole mouse brains.Nature methods · 2022Article
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- A micro-CT-based standard brain atlas of the bumblebee.Cell and tissue research · 2021Article
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- Non-Rodent Genetic Animal Models for Studying Tauopathy: Review ofInternational journal of molecular sciences · 2021Review
- Calculation of the force field required for nucleus deformation during cell migration through constrictions.PLoS computational biology · 2021Article
- Transsynaptic mapping ofeLife · 2021Article
20 more citing papers are in PubMed but not listed here.
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8 authors.
Funding
Abstract
Analyzing Drosophila melanogaster neural expression patterns in thousands of three-dimensional image stacks of individual brains requires registering them into a canonical framework based on a fiducial reference of neuropil morphology. Given a target brain labeled with predefined landmarks, the BrainAligner program automatically finds the corresponding landmarks in a subject brain and maps it to the coordinate system of the target brain via a deformable warp. Using a neuropil marker (the antibody nc82) as a reference of the brain morphology and a target brain that is itself a statistical average of data for 295 brains, we achieved a registration accuracy of 2 μm on average, permitting assessment of stereotypy, potential connectivity and functional mapping of the adult fruit fly brain. We used BrainAligner to generate an image pattern atlas of 2954 registered brains containing 470 different expression patterns that cover all the major compartments of the fly brain.
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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.