×
OpenNeuro Support
Please email issues or questions to
support@openneuro.freshdesk.com
or use the form below.
×
Upload Dataset
Step 1: Select Files
Step 2: Validation
Step 3: Metadata
Step 4: Accept Terms
MRIRobust joint registration of multiple stains and MRI for multimodal 3D histology reconstruction: Application to the Allen human brain atlas
MRI
This dataset has been published! You can make changes to this Draft page, then create a new version to make them public.
OpenNeuro Accession Number: ds003590Files: 5Size: 726.43MB
BIDS Validation
ValidREADME
This repository contains the following files:
BIDS Directory Structure
Raw MRI volumes (T2w) at 7T
sub-01/ses-7T/anat/ - MRI volume from the Allen Human Brain Atlas used as the reference for 3D histology reconstruction
Reconstructed MRI and histological data in subject space at 0.25mm isotropic
derivatives/historecon/sub-01/sub-01_res-0.25_<stain>
Reconstructed MRI and histological data in subject space at 0.25mm isotropic (after revision 1)
derivatives/historecon-revision-1/sub-01/sub-01_res-0.25_<stain>
Corresponding MNI coordinates form the reconstructed volumes (4D volume with RAS/image coordinates). These files lie on the space of the histology reconstructions, thus, opening it on top of any of the reconstructed contrasts will directly give the image indices on MNI space
derivatives/mni-coordinates/sub-01/mni.coords.ijk.nii.gz
derivatives/mni-coordinates/sub-01/mni.coords.ijk.nii.gz
===
Authors
- Adria Casamitjana
- Marco Lorenzi
- Sebastiano Ferraris
- Loïc Peter
- Marc Modat
- Allison Stevens
- Bruce Fischl
- Eugenio Iglesias
Available Modalities
MRIVersions
Draft
Updated: 2021-08-03Tasks
N/AUploaded by
Adrià Casamitjana on 2021-03-29 - about 1 year agoLast Updated
2021-08-03 - 10 months agoSessions
1Participants
1Dataset DOI
doi:10.18112/openneuro.ds003590.v1.0.2License
CC0Acknowledgements
N/AHow to Acknowledge
Casamitjana, Adrià, et al. "Robust joint registration of multiple stains and MRI for multimodal 3D histology reconstruction: Application to the Allen human brain atlas." arXiv preprint arXiv:2104.14873 (2021).Funding
- This work was primarily funded by the European Research Council (Starting Grant 677697, project \BUNGEE-TOOLS").
- EPSRC-funded UCL Centre for Doctoral Training in Medical Imaging (EP/L016478/1) 985 and Doctoral Training Grant (EP/M506448/1).
- BRAIN Initiative (1RF1MH123195- 01, U01MH117023),
- Biomedical Imaging and Bioengineering 990 (P41EB015896, 1R01EB023281, R01EB006758, R21EB018907, R01EB019956, P41EB030006)
- National Institute on Aging (1R01AG070988-01, 1R56AG064027, 1R01AG064027, 5R01AG008122, R01AG016495)
- National Institute of Men995 tal Health (R01 MH123195, R01 MH121885, 1RF1MH123195)
- National Institute for Neurological Disorders and Stroke (R01NS0525851, R21NS072652, R01NS070963, R01NS083534, 5U01NS086625,5U24NS10059103, R01NS105820)
- Shared Instrumentation Grants 1S10RR023401, 1S10RR019307, and 1S10RR023043.
- NIH Blueprint for Neuroscience Research (5U01-MH093765), part 1005 of the multi-institutional Human Connectome Project.
- Wellcome/EPSRC Centre for Medical En1015 gineering [WT203148/Z/16/Z; NS/A000049/1]
- Alzheimer's Research UK (ARUK-IRG2019A-003)
- NIH (1RF1MH123195-01, 1R01AG070988-01)
References and Links
Ethics Approvals
- N/A
×
Sign in
What is this?
ORCID users are identified and connected to their contributions and affiliations, across disciplines, borders, and time. Learn more
Comments