Brain atlases provide spatial reference systems for neuroscience, giving the ability to navigate, characterise and analyse information on the basis of anatomical location. Atlases define shape, location and variability of brain regions in common coordinate spaces, and allow interpretation, integration, and comparison of observations and measurements collected from different sources and different brains.

EBRAINS develops open access 3D atlases for the human, rat, and mouse brain

EBRAINS develops open access 3D atlases for the human, rat, and mouse brain. Explore brain regions in an interactive 3D viewer at microscopic detail and discover related multimodal data features from the EBRAINS Knowledge Graph. Programmatic access via a Python client, HTTP API, and command line interface is in development, coming soon to EBRAINS. Integrate your own data of different scale and type to EBRAINS atlases to make them available in a common spatial framework for reuse and quantitative analysis. Use EBRAINS atlas analysis tools to extract, quantify, and compare data in specific brain regions


Atlases

Services

    • Atlases

    Multilevel Human Brain Atlas

    A three-dimensional atlas that integrates the different facets of human brain organisation at the millimeter and micrometer level
    • Atlases

    Rat Brain Atlas

    Explore open access 3D anatomical atlas for the rat brain
    • Atlases

    Mouse Brain Atlas

    Explore open access 3D anatomical atlas for the mouse brain
    • Atlases

    QUINT

    Extract, quantify and analyse labelled features from rodent histological images
    • Atlases

    QuickNII and VisuAlign

    Spatially register mouse and rat serial 2D brain images to 3D reference atlases
    • Atlases

    VoluBA

    Spatially register high-resolution volumes of interest to 3D reference atlases
    • Atlases

    JuGEx

    Gene expression analysis in human brain atlas regions
Access all EBRAINS services