1,044 research outputs found
The multilevel human brain atlas in EBRAINS - an overview
No full textThe multilevel human brain atlas in EBRAINS - an overview Katrin Amunts, Timo DickscheidBrain atlases enable the localization and analysis of data from different sources in a common reference system, making them an essential research tool for understanding the structural and functional organization of the brain. EBRAINS offers a multilevel atlas of the human brain, which captures different principles of brain organization in a comprehensive anatomical framework. It integrates the Julich-Brain probabilistic cytoarchitectonic maps and the BigBrain microscopic 3D model as core elements, and links them with multimodal data features describing microstructure, connectivity and function. The atlas is deeply integrated into the EBRAINS infrastructure, making use of its sustainable data sharing capabilities and cloud resources. This session provides a conceptual introduction to the multilevel human brain atlas, and an overview of the EBRAINS research infrastructure as a sustainable platform for accessing, operating and developing the atlas
Probabilistic cytoarchitectonic map of LB (Amygdala) (v6.4)
No full textThis dataset contains the distinct architectonic LB (Amygdala) in the individual, single subject template of the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. As part of the Julich-Brain cytoarchitectonic atlas, the area was identified using cytoarchitectonic analysis on cell-body-stained histological sections of 10 human postmortem brains obtained from the body donor program of the University of Düsseldorf. The results of the cytoarchitectonic analysis were then mapped to both reference spaces, where each voxel was assigned the probability to belong to LB (Amygdala). The probability map of LB (Amygdala) is provided in the NifTi format for each brain reference space and hemisphere. The Julich-Brain atlas relies on a modular, flexible and adaptive framework containing workflows to create the probabilistic brain maps for these structures. Note that methodological improvements and integration of new brain structures may lead to small deviations in earlier released datasets. Other available data versions of LB (Amygdala): Kedo et al. (2018) [Data set, v6.1] [DOI: 10.25493/E7QC-B3Y](https://doi.org/10.25493%2FE7QC-B3Y) The most probable delineation of LB (Amygdala) derived from the calculation of a maximum probability map of all currently released Julich-Brain brain structures can be found here: Amunts et al. (2019) [Data set, v1.13] [DOI: 10.25493/Q3ZS-NV6](https://doi.org/10.25493%2FQ3ZS-NV6) Amunts et al. (2019) [Data set, v1.18] [DOI: 10.25493/8EGG-ZAR](https://doi.org/10.25493%2F8EGG-ZAR) Amunts et al. (2020) [Data set, v2.2] [DOI: 10.25493/TAKY-64D](https://doi.org/10.25493%2FTAKY-64D
Reference delineations of Area hOc1 (V1, 17, CalcS) in individual sections of the BigBrain
No full textThis dataset contains cytoarchitectonic maps of Area hOc1 (V1, 17, CalcS) in the BigBrain dataset [Amunts et al. 2013]. The mappings were created using the semi-automatic method presented in Schleicher et al. 1999, based on coronal histological sections on 1 micron resolution. Mappings are available on every 60th section of the visual system. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013, which were provided by Claude Lepage (McGill). For this brain area, a highly detailed 3D map has been computed based on automatic delineations in every histological section from a novel Deep Learning algorithm. This dataset can be accessed here: [Ultrahigh resolution 3D cytoarchitectonic map of Area hOc1 (V1, 17, CalcS) created by a Deep-Learning assisted workflow](https://kg.humanbrainproject.eu/instances/Dataset/696d6062-3b86-498f-9ca6-e4d67b433396) This ultrahigh resolution 3D cytoarchitectonic map of Area hOc1 (V1, 17, CalcS) can be explored in the HBP interactive Atlas Viewer
Reference delineations of area HATA (Hippocampus) in individual sections of the BigBrain
No full textThis dataset contains cytoarchitectonic delineations of area HATA (Hippocampus) in the BigBrain dataset [Amunts et al. 2013]. The delineations were created after identification of the area in the histological, cell-stained sections based on the cytoarchitectonic criteria. Mappings of the HATA are available on every 15th to 60th section in both hemispheres. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013, which were provided by Claude Lepage (McGill)
Reference delineations of Area hOc2 (V2, 18) in individual sections of the BigBrain
No full textThis dataset contains cytoarchitectonic maps of Area hOc2 (V2, 18) in the BigBrain dataset [Amunts et al. 2013]. The mappings were created using the semi-automatic method presented in Schleicher et al. 1999, based on coronal histological sections on 1 micron resolution. Mappings are available on every 60th section of the visual system. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013, which were provided by Claude Lepage (McGill). For this brain area, a highly detailed 3D map has been computed based on automatic delineations in every histological section from a novel Deep-Learning algorithm. This dataset can be accessed here: [Ultrahigh resolution 3D cytoarchitectonic map of Area hOc2 (V2, 18) created by a Deep-Learning assisted workflow](https://kg.humanbrainproject.eu/instances/Dataset/63093617-9b72-45f5-88e6-f648ad05ae79) This ultrahigh resolution 3D cytoarchitectonic map of Area hOc2 (V2, 18) can be explored in the HBP interactive Atlas Viewer
Reference delineations of area TrS (Transsubiculum) in individual sections of the BigBrain
No full textThis dataset contains cytoarchitectonic delineations of area TrS (Transsubiculum) in the BigBrain dataset [Amunts et al. 2013]. The delineations were created after identification of the area in the histological, cell-stained sections based on the cytoarchitectonic criteria. Mappings of the TrS are available on every 15th to 60th section in both hemispheres. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013, which were provided by Claude Lepage (McGill)
Reference delineations of Subiculum (Hippocampus) in individual sections of the BigBrain
No full textThis dataset contains cytoarchitectonic delineations of the Subicular Complex including the prosubiculum (ProS), subiculum proper (Sub), presubiculum (PreS) and parasubiculum (PaS) in the BigBrain dataset [Amunts et al. 2013]. The delineations were created after identification of the areas in the histological, cell-stained sections based on the cytoarchitectonic criteria. Mappings of ProS, Sub, PreS and PaS are available on every 15th to 60th section in both hemispheres. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013, which were provided by Claude Lepage (McGill)
Reference delineations of DG (Hippocampus) in individual sections of the BigBrain
No full textThis dataset contains cytoarchitectonic delineations of hippocampal area CA4 and Fascia dentata (FD) in the BigBrain dataset [Amunts et al. 2013]. The delineations were created after identification of the area in the histological, cell-stained sections based on the cytoarchitectonic criteria. Mappings are available on every 15th to 60th section of the CA4 and FD in both hemispheres. They were then transformed to the sections of the 3D reconstructed BigBrain space using the transformations used in Amunts et al. 2013, which were provided by Claude Lepage (McGill)
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