TY  - CONF
AU  - Morales-Gregorio, Aitor
AU  - Bakker, Rembrandt
AU  - van Albada, Sacha
TI  - 3D reconstruction and analysis of the macaque brain from histological slices
M1  - FZJ-2021-04674
PY  - 2021
AB  - Given the usefulness of the BigBrain high resolution histological volume, it would be very valuable to have a similar public domain resource for the macaque. Isotropic high resolution data to build such a resource is not currently available, but as an initial step we present a histological volume based on the NIH Blueprint Non-Human Primate (NHP) Atlas [1], acquired by the Allen Institute and funded by the NIH. Our contribution is to take the set of Nissl stained slices (50 μm thick, 250 μm apart) and to create a smooth volume by calculating the optimal alignment. We used open tools [2, 3] for processing, modernized the code of the poSSum three-dimensional reconstruction toolbox [4] and extended the deformable registration method thereof, using the an MRI-based macaque atlas [5] as a reference template. We will use the reconstructed volume to estimate neuron densities across all cortical areas used in the core-nets.org macaque connectivity database [6]. Besides adding to the body of knowledge on the cytoarchitecture [7] and geometry of the macaque cortex, this work will provide tools to further analyze histological data and support large-scale dynamical modeling studies.[1] NIH Blueprint NHP Atlas, www.blueprintnhpatlas.org[2] Bakker et al. Neuroinformatics, 2015[3] Microdraw, microdraw.pasteur.fr[4] Majka et al. Journal of Comparative Neurology, 2016[5] Calabrese et al. NeuroImage, 2015[6] Markov et al. Cerebral Cortex, 2012[7] Beul and Hilgetag. NeuroImage, 2019
T2  - 5th BigBrain Workshop
CY  - 21 Sep 2021 - 23 Sep 2021, Virtual (Germany)
Y2  - 21 Sep 2021 - 23 Sep 2021
M2  - Virtual, Germany
LB  - PUB:(DE-HGF)6
UR  - https://juser.fz-juelich.de/record/902920
ER  -