Stefan J. Blaschke
b41bc74cf6
[DATALAD] Recorded changes
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1 year ago | |
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| .. | ||
| AllenBrainAPI-master | 1 year ago | |
| annotation | 1 year ago | |
| template | 1 year ago | |
| .DS_Store | 1 year ago | |
| README.txt | 1 year ago | |
| annotation_label_IDs.xlsx | 1 year ago | |
| annotation_parent.nii.gz | 1 year ago | |
| download_ARA.py | 1 year ago | |
| getParentalARA.m | 1 year ago | |
| getParentalARA.m~ | 1 year ago | |
| readXML_Lables.m | 1 year ago | |
README.txt
Here you will find all the tools to create the AIDAmri parental atlas. Therefore two files are necessary:
1. The original annotations of the Allen Brain Institute. These can be downloaded using AllenSDK using the download_ARA.py tool. This program can be executed without input values. The files annotation.nii.gz and template.nii.gz are generated automatically.
2. An xlsx file according to annotation_label_IDs_valid.xlsx. This file was manually created using AllenBrainAPI-master. It has been added for the sake of completeness only and is not part of its own development. The implementation comes from https://github.com/SainsburyWellcomeCentre/AllenBrainAPI. You can find more details on how to use AllenBrianAPI-master there.
The parental atlas is created using both files. All regions in annotation.nii.gz are merged according to the table annotation_label_IDs_valid.xlsx and saved as annotation_parent.nii.gz. Enter the following command in the command window of Matlab:
getParentalARA ('./ annotation_label_IDs.xlsx', '. / annotation / annotation.nii.gz')
1. The original annotations of the Allen Brain Institute. These can be downloaded using AllenSDK using the download_ARA.py tool. This program can be executed without input values. The files annotation.nii.gz and template.nii.gz are generated automatically.
2. An xlsx file according to annotation_label_IDs_valid.xlsx. This file was manually created using AllenBrainAPI-master. It has been added for the sake of completeness only and is not part of its own development. The implementation comes from https://github.com/SainsburyWellcomeCentre/AllenBrainAPI. You can find more details on how to use AllenBrianAPI-master there.
The parental atlas is created using both files. All regions in annotation.nii.gz are merged according to the table annotation_label_IDs_valid.xlsx and saved as annotation_parent.nii.gz. Enter the following command in the command window of Matlab:
getParentalARA ('./ annotation_label_IDs.xlsx', '. / annotation / annotation.nii.gz')
| datacite.yml | |
|---|---|
| Title | Longitudinal MRI data (T2w and rs-fMRI) after cortical stroke and cathodal transcranial direct current stimulation (tDCS) in mice |
| Authors |
Blaschke,Stefan;University Hospital Cologne;ORCID:0000-0001-8643-3824
Rueger,Maria Adele;University Hospital Cologne;ORCID:0000-0001-8036-395X |
| Description | 'Longitudinal T2-weighted MRI, rs-fMRI and behavorial data (baseline and up to 4 weeks after stroke) in the photothrombosis model and transcranial direct current stimulation (cathodal tDCS) in mice' |
| License | CC BY 4.0 (https://creativecommons.org/licenses/by/4.0/) |
| References |
Blaschke SJ, Vlachakis S, Pallast N, Walter HL, Volz LJ, Wiedermann D, Fink GR, Hoehn M, Aswendt M, Schroeter M, Rueger MA. Transcranial Direct Current Stimulation Reverses Stroke-Induced Network Alterations in Mice. Stroke. 2023 Jun 28. doi: 10.1161/STROKEAHA.123.042808 [doi:10.1161/STROKEAHA.123.042808] (IsSupplementTo)
|
| Funding |
DFG, 431549029–SFB 1451
Marga und Walter Boll Stiftung, #210/10/15 |
| Keywords |
ischemia
brain magnetic resonance imaging mice transcranial direct currrent stimulation functional connectivity motor recovery |
| Resource Type |
Dataset |