DataLad dataset for https://doi.org/10.12751/g-node.699mgv -- Longitudinal (8 wks) T2-weighted MRI and Diffusion Tensor Imaging (DTI) of WT mice with cortical stroke

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C3a_PT_8wks_T2w_DTI

Longitudinal MRI including T2-weighted (T2w) and Diffusion Tensor Imaging (DTI) of WT mice with cortical stroke lesions induced by photothrombosis (PT) monitored for 8 weeks (8 wks). The mice received either intranasal C3a (complement factor) or PBS treatment from day 7 to day 28 post stroke.

Files:

inputs

MRI_raw_data: - contains all raw data in Bruker 2dseq format and the original Bruker folder structure
Study > proc/raw_data > Time point> Group > Subject ID. The physio folder contains the physiological monitoring raw data (breathing, anaesthesia gas, temperature, etc.).
- Time point (Baseline, post stroke days 7-56)
- Group (Treatment_C3a/PBS)
MRI_proc_data: - contains all data processed with the AIDAmri_v1.1 pipeline. Processing steps: define stroke masks, convert Bruker to NIfTI-1 data format, image re-orientation, bias-field correction, brain extraction, region-of-interest segmentation, registration with the Allen Mouse Brain Atlas (CCFv3), structural connectivity analysis.

code

AIDAmri_DTIdata_extract - contains adapted Python scripts from the AIDAmri_v1.1 pipeline to extract diffusion measures (FA, RD, MD, AD) from the DTI data.

Authors:

Markus Aswendt, Olivia Käsgen, Frederique Wieters, Michael Diedenhofen, Dirk Wiedermann

Reference:

Stokowska et al. J Clin Invest. 2023 https://doi.org/10.1172/JCI162253

datacite.yml
Title	Longitudinal (8 wks) T2-weighted MRI and Diffusion Tensor Imaging (DTI) of WT mice with cortical stroke
Authors	Aswendt,Markus;University Hospital Cologne;ORCID:0000-0003-1423-0934 Käsgen,Olivia;University Hospital Cologne Wieters,Frederique;University Hospital Cologne Diedenhofen,Michael;Max Planck Institute for Metabolism Research Wiedermann,Dirk;Max Planck Institute for Metabolism Research
Description	Longitudinal MRI including T2-weighted (T2w) and Diffusion Tensor Imaging (DTI) of WT mice with cortical stroke lesions induced by photothrombosis (PT) monitored for 8 weeks (8 wks). The mice received either intranasal C3a (complement factor) or PBS treatment from day 7 to day 28 post stroke.
License	CC BY-NC-SA (https://creativecommons.org/licenses/by-nc-sa/4.0/)
References	Stokowska A, Aswendt M, Zucha D, Lohmann S, Wieters F, Moran Suarez J, Atkins AL, Li Y, Miteva M, Lewin J, Wiedermann D, Diedenhofen M, Torinsson Naluai Å, Abaffy P, Valihrach L, Kubista M, Hoehn M, Pekny M, Pekna M. Complement C3a treatment accelerates recovery after stroke via modulation of astrocyte reactivity and cortical connectivity. J Clin Invest. 2023 Mar 30:e162253. Available at doi: 10.1172/JCI162253. Epub ahead of print. PMID: 36995772. [doi:10.1172/JCI162253] (IsSupplementTo)
Funding
Keywords	MRI DTI Stroke Recovery Complement system
Resource Type	Dataset

README.md