ArticleFrontiers in neuroinformatics2023
A neuroscientist's guide to using murine brain atlases for efficient analysis and transparent reporting.
Article in Frontiers in neuroinformatics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
7 citing papers in PubMed.
- DeMBA: a developmental atlas for navigating the mouse brain in space and time.Nature communications · 2025Article
- Considerations and recommendations from the ISMRM diffusion study group for preclinical diffusion MRI: Part 1: In vivo small-animal imaging.Magnetic resonance in medicine · 2025Review
- Developmental mouse brain common coordinate framework.Nature communications · 2024Article
- The Locare workflow: representing neuroscience data locations as geometric objects in 3D brain atlases.Frontiers in neuroinformatics · 2024Article
- Review
- Developmental Mouse Brain Common Coordinate Framework.bioRxiv : the preprint server for biology · 2023Article
- AtOM, an ontology model to standardize use of brain atlases in tools, workflows, and data infrastructures.Scientific data · 2023Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Brain atlases are widely used in neuroscience as resources for conducting experimental studies, and for integrating, analyzing, and reporting data from animal models. A variety of atlases are available, and it may be challenging to find the optimal atlas for a given purpose and to perform efficient atlas-based data analyses. Comparing findings reported using different atlases is also not trivial, and represents a barrier to reproducible science. With this perspective article, we provide a guide to how mouse and rat brain atlases can be used for analyzing and reporting data in accordance with the FAIR principles that advocate for data to be findable, accessible, interoperable, and re-usable. We first introduce how atlases can be interpreted and used for navigating to brain locations, before discussing how they can be used for different analytic purposes, including spatial registration and data visualization. We provide guidance on how neuroscientists can compare data mapped to different atlases and ensure transparent reporting of findings. Finally, we summarize key considerations when choosing an atlas and give an outlook on the relevance of increased uptake of atlas-based tools and workflows for FAIR data sharing.
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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 Socratic graph.