The BigBrainWarp toolbox for integration of BigBrain 3D histology with multimodal neuroimaging
- McGill University, Canada
- Concordia University, Canada
- UCL, United Kingdom
- University of Western Ontario, Canada
- Max Planck Institute Leipzig, Germany
- Montreal Neurological Institute and Hospital, Canada
- Heinrich Heine University, Germany
- Forschungszentrum Jülich, Germany
Abstract
Neuroimaging stands to benefit from emerging ultrahigh-resolution 3D histological atlases of the human brain; the first of which is 'BigBrain'. Here, we review recent methodological advances for the integration of BigBrain with multi-modal neuroimaging and introduce a toolbox, 'BigBrainWarp', that combines these developments. The aim of BigBrainWarp is to simplify workflows and support the adoption of best practices. This is accomplished with a simple wrapper function that allows users to easily map data between BigBrain and standard MRI spaces. The function automatically pulls specialised transformation procedures, based on ongoing research from a wide collaborative network of researchers. Additionally, the toolbox improves accessibility of histological information through dissemination of ready-to-use cytoarchitectural features. Finally, we demonstrate the utility of BigBrainWarp with three tutorials and discuss the potential of the toolbox to support multi-scale investigations of brain organisation.
Data availability
All data generated or analysed during this study are included in the BigBrainWarp repository (https://github.com/caseypaquola/BigBrainWarp).
Article and author information
Author details
Paule-Joanne Toussaint
Funding
Helmholtz Association
- Casey Paquola
- Lindsay B Lewis
- Claude Lepage
- Jordan DeKraker
- Paule-Joanne Toussaint
- Sofie Louise Valk
- D Louis Collins
- Katrin Amunts
- Alan C Evans
- Timo Dickscheid
- Boris C Bernhardt
Fonds de Recherche du Québec - Santé
- Casey Paquola
- Boris C Bernhardt
National Science and Engineering Research Council of Canada
- Ali Khan
- Boris C Bernhardt
Canadian Institutes of Health Research
- Jessica Royer
- Ali Khan
- Boris C Bernhardt
SickKids Foundation
- Boris C Bernhardt
Azrieli Center for Autism Research
- Boris C Bernhardt
The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
Copyright
© 2021, Paquola et al.
This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.
Metrics
-
- 3,060
- views
-
- 408
- downloads
-
- 65
- citations
Views, downloads and citations are aggregated across all versions of this paper published by eLife.
Citations by DOI
-
- 65
- citations for umbrella DOI https://doi.org/10.7554/eLife.70119
Download links
A two-part list of links to download the article, or parts of the article, in various formats.
Downloads (link to download the article as PDF)
Open citations (links to open the citations from this article in various online reference manager services)
Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)
The BigBrainWarp toolbox for integration of BigBrain 3D histology with multimodal neuroimaging
eLife 10:e70119.
https://doi.org/10.7554/eLife.70119
