TY - JOUR
T1 - Waxholm Space atlas of the rat brain
T2 - a 3D atlas supporting data analysis and integration
AU - Kleven, Heidi
AU - Bjerke, Ingvild E.
AU - Clascá, Francisco
AU - Groenewegen, Henk J.
AU - Bjaalie, Jan G.
AU - Leergaard, Trygve B.
N1 - Funding Information:
We thank J. Imad and A. E. Wennberg for valuable contributions to early versions of the anatomical annotations for the WHS rat brain atlas version 4, U., Schlegel and I. Reiten for assistance with sharing datasets via the EBRAINS Data and Knowledge services, and G. Csucs and E. A. Papp for expert technical assistance. We also thank M. A. Puchades, S. C. Yates, N. Groeneboom and X. Gui for implementation of the atlas in tools and viewers. This work was funded by the European Union’s Horizon 2020 Framework Programme for Research and Innovation under the specific grant agreement no. 785907 (Human Brain Project SGA2; J.G.B. and T.B.L.) and specific grant agreement no. 945539 (Human Brain Project SGA3; J.G.B. and T.B.L), and The Research Council of Norway under grant agreement no. 269774 (INCF Norwegian Node; J.G.B. and T.B.L.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Publisher Copyright:
© 2023, The Author(s).
PY - 2023/11/1
Y1 - 2023/11/1
N2 - Volumetric brain atlases are increasingly used to integrate and analyze diverse experimental neuroscience data acquired from animal models, but until recently a publicly available digital atlas with complete coverage of the rat brain has been missing. Here we present an update of the Waxholm Space rat brain atlas, a comprehensive open-access volumetric atlas resource. This brain atlas features annotations of 222 structures, of which 112 are new and 57 revised compared to previous versions. It provides a detailed map of the cerebral cortex, hippocampal region, striatopallidal areas, midbrain dopaminergic system, thalamic cell groups, the auditory system and main fiber tracts. We document the criteria underlying the annotations and demonstrate how the atlas with related tools and workflows can be used to support interpretation, integration, analysis and dissemination of experimental rat brain data.
AB - Volumetric brain atlases are increasingly used to integrate and analyze diverse experimental neuroscience data acquired from animal models, but until recently a publicly available digital atlas with complete coverage of the rat brain has been missing. Here we present an update of the Waxholm Space rat brain atlas, a comprehensive open-access volumetric atlas resource. This brain atlas features annotations of 222 structures, of which 112 are new and 57 revised compared to previous versions. It provides a detailed map of the cerebral cortex, hippocampal region, striatopallidal areas, midbrain dopaminergic system, thalamic cell groups, the auditory system and main fiber tracts. We document the criteria underlying the annotations and demonstrate how the atlas with related tools and workflows can be used to support interpretation, integration, analysis and dissemination of experimental rat brain data.
UR - https://www.scopus.com/pages/publications/85173095637
UR - https://www.ncbi.nlm.nih.gov/pubmed/37783883
UR - https://www.scopus.com/pages/publications/85173095637
U2 - 10.1038/s41592-023-02034-3
DO - 10.1038/s41592-023-02034-3
M3 - Article
C2 - 37783883
SN - 1548-7091
VL - 20
SP - 1822
EP - 1829
JO - Nature methods
JF - Nature methods
IS - 11
ER -