PUBLICATION
DMC-BrainMap is an open-source, end-to-end tool for multi-feature brain mapping in different species
- Authors
- Jung, F., Cao, X., Heymans, L., Carlén, M.
- ID
- ZDB-PUB-260211-9
- Date
- 2026
- Source
- Cell reports methods : 101302101302 (Journal)
- Registered Authors
- Keywords
- CP: computational biology, CP: neuroscience, DMC-BrainMap, Python, anatomical mapping, brain mapping, napari, reference atlas registration
- MeSH Terms
-
- Animals
- Brain*/anatomy & histology
- Brain*/diagnostic imaging
- Brain Mapping*/methods
- Image Processing, Computer-Assisted/methods
- Mice
- Neurons
- Rats
- Software*
- Zebrafish
- PubMed
- 41666930 Full text @ Cell Rep Methods
Citation
Jung, F., Cao, X., Heymans, L., Carlén, M. (2026) DMC-BrainMap is an open-source, end-to-end tool for multi-feature brain mapping in different species. Cell reports methods. :101302101302.
Abstract
Rigid anatomical mapping is a necessity in current neuroscience research. Here, we introduce DMC-BrainMap, an open-source napari plugin designed as a user-friendly tool for streamlined processing and whole-brain analysis of anatomical data. Its core functionalities include all steps after image acquisition, i.e., preprocessing of images, registration of images to a reference atlas, segmentation of different anatomical features, and data analysis/visualization. DMC-BrainMap can be applied to histological data obtained from a variety of model organisms at different developmental stages to map a diverse range of features. We demonstrate the utility of DMC-BrainMap by mapping and quantifying the location of cell bodies, axonal densities, injection sites, optical fiber and Neuropixels tracts, (single-cell) spatial transcriptomics, as well as neuron morphology data in mice, rats, and zebrafish. By eliminating the need for programming by the user, DMC-BrainMap provides an easy-to-use tool for increased rigor, reproducibility, and data sharing in neuroscientific research involving animal models.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping