Journal Article

FZJ-2026-03536

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Siibra: a software tool suite for realizing a Multilevel Human Brain Atlas from complex data resources

Dickscheid, T. (Corresponding author)FZJ* ; Gui, X.FZJ* ; Simsek, A. N.FZJ* ; Schiffer, C.FZJ* ; Mangin, J.-F. ; Leprince, Y. ; Jirsa, V. ; Bjaalie, J. G. ; Leergaard, T. B. ; Bludau, S.FZJ* ; Amunts, K.FZJ*

2026
Nature Publishing Group London [u.a.]

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Please use a persistent id in citations: doi:10.1038/s41592-026-03159-x

Abstract: Computational technology opens new possibilities toward understanding the complexity of the human brain, but it requires integrating measurements from different modalities and scales in an anatomical context and exposing them in an interoperable, actionable form. Especially with growing big data resources, accessing information from different scales and modalities coherently for visual exploration, reproducible analysis and application development remains challenging. Here we present siibra, a tool suite that connects diverse data from cloud resources to reference atlases and coordinate spaces. It supports different use cases by making contents accessible through a web viewer, Python library and HTTP application programming interface. Using siibra we implemented a Multilevel Human Brain Atlas linking macro-anatomical concepts and their inter-subject variability with measurements of the microstructural composition and intrinsic variance of brain regions, building on cytoarchitecture as a reference and supporting MRI-based and microscopic templates. The atlas is integrated with the EBRAINS research infrastructure. All software and content are openly accessible.

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Contributing Institute(s):

1. Strukturelle und funktionelle Organisation des Gehirns (INM-1)

Research Program(s):

1. 5254 - Neuroscientific Data Analytics and AI (POF4-525) (POF4-525)
2. 5251 - Multilevel Brain Organization and Variability (POF4-525) (POF4-525)
3. EBRAINS 2.0 - EBRAINS 2.0: A Research Infrastructure to Advance Neuroscience and Brain Health (101147319) (101147319)
4. HBP SGA3 - Human Brain Project Specific Grant Agreement 3 (945539) (945539)
5. eBRAIN-Health - eBRAIN-Health - Actionable Multilevel Health Data (101058516) (101058516)
6. HIBALL - Helmholtz International BigBrain Analytics and Learning Laboratory (HIBALL) (InterLabs-0015) (InterLabs-0015)
7. Helmholtz AI - Helmholtz Artificial Intelligence Coordination Unit – Local Unit FZJ (E.40401.62) (E.40401.62)
8. JL SMHB - Joint Lab Supercomputing and Modeling for the Human Brain (JL SMHB-2021-2027) (JL SMHB-2021-2027)
9. X-BRAIN (ZT-I-PF-4-061) (ZT-I-PF-4-061)
10. DFG project G:(GEPRIS)501864659 - NFDI4BIOIMAGE - Nationale Forschungsdateninfrastruktur für Mikroskopie und Bildanalyse (501864659) (501864659)
11. DFG project G:(GEPRIS)313856816 - SPP 2041: Computational Connectomics (313856816) (313856816)

Appears in the scientific report 2026

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Database coverage:
; BIOSIS Previews ; Biological Abstracts ; Clarivate Analytics Master Journal List ; Current Contents - Life Sciences ; DEAL Nature ; Ebsco Academic Search ; Essential Science Indicators ; IF >= 40 ; JCR ; Nationallizenz ; SCOPUS ; Science Citation Index Expanded ; Web of Science Core Collection

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