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001007218 0247_ $$2doi$$a10.1101/2023.01.22.525049
001007218 0247_ $$2Handle$$a2128/34381
001007218 037__ $$aFZJ-2023-01990
001007218 1001_ $$00000-0002-3710-321X$$aKleven, Heidi$$b0$$eCorresponding author
001007218 245__ $$aAtOM, an ontology model for standardizing use of brain atlases in tools, workflows, and data infrastructures
001007218 260__ $$c2023
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001007218 520__ $$aBrain atlases are important reference resources for accurate anatomical description of neuroscience data. Open access, three-dimensional atlases serve as spatial frameworks for integrating experimental data and defining regions-of-interest in analytic workflows. However, naming conventions, parcellation criteria, area definitions, and underlying mapping methodologies differ considerably between atlases and across atlas versions. This lack of standardization impedes use of atlases in analytic tools and registration of data to different atlases. To establish a machine-readable standard for representing brain atlases, we identified four fundamental atlas elements, defined their relations, and created an ontology model. Here we present our Atlas Ontology Model (AtOM) and exemplify its use by applying it to mouse, rat, and human brain atlases. We propose minimum requirements for FAIR atlases and discuss how AtOM may facilitate atlas interoperability and data integration. AtOM provides a standardized framework for communication and use of brain atlases to create, use, and refer to specific atlas elements and versions. We argue that AtOM will accelerate analysis, sharing, and reuse of neuroscience data.
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001007218 536__ $$0G:(EU-Grant)785907$$aHBP SGA2 - Human Brain Project Specific Grant Agreement 2 (785907)$$c785907$$fH2020-SGA-FETFLAG-HBP-2017$$x1
001007218 536__ $$0G:(EU-Grant)945539$$aHBP SGA3 - Human Brain Project Specific Grant Agreement 3 (945539)$$c945539$$fH2020-SGA-FETFLAG-HBP-2019$$x2
001007218 536__ $$0G:(DE-HGF)InterLabs-0015$$aHIBALL - Helmholtz International BigBrain Analytics and Learning Laboratory (HIBALL) (InterLabs-0015)$$cInterLabs-0015$$x3
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001007218 7001_ $$00000-0002-7509-4801$$aGillespie, Thomas H.$$b1$$eCorresponding author
001007218 7001_ $$0P:(DE-Juel1)145394$$aZehl, Lyuba$$b2
001007218 7001_ $$0P:(DE-Juel1)165746$$aDickscheid, Timo$$b3
001007218 7001_ $$00000-0001-7899-906X$$aBjaalie, Jan G.$$b4
001007218 7001_ $$00000-0002-8406-3871$$aMartone, Maryann E.$$b5
001007218 7001_ $$00000-0001-5965-8470$$aLeergaard, Trygve B.$$b6
001007218 773__ $$a10.1101/2023.01.22.525049$$p24$$tbioarxiv$$y2023
001007218 8564_ $$uhttps://juser.fz-juelich.de/record/1007218/files/2023.01.22.525049v1.full.pdf$$yOpenAccess
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001007218 9141_ $$y2023
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