We present a step-by-step protocol to perform version control and remote collaboration for large multimodal datasets. A data management plan was introduced to ensure data security in addition to a homogeneous file and folder structure. Changes to the data were automatically tracked using DataLad and all data was shared on the research data platform GIN. This simple and cost-effective workflow facilitates the adoption of FAIR data logistics and processing workflows by making the raw and processed ...

This repository contains various resources related to the study on post-stroke recovery in a mouse model, focusing on the application of the Proportional Recovery Rule (PRR).

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.

Longitudinal (4 wks) T2-weighted MRI and Diffusion Tensor Imaging (DTI) of WT mice with cortical stroke (photothrombosis model)

Longitudinal MRI (T2-weighted and rs-fMRI) of GFAP-/-/Vim-/- and WT mice; 6 time points over 4 weeks post photothrombotic stroke.

Post-Stroke Recovery Data Repository

This repository contains various resources related to the study on post-stroke recovery in a mouse model, focusing on the application of the Proportional Recovery Rule (PRR).

Repository Structure

• code/: Contains all the code used for the analysis in this study. Detailed information is available in the README within the code folder.
• input/: This folder contains all datasets used in the publication.
• output/: This directory includes the final ...

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 ...

Files:

• File structure: Study > proc/raw_data > Time point> Group > Subject ID.
• Time point (Baseline, post stroke days 1-28)
• Group (Stroke/Sham)
• Groups:
• Stroke: SP_T1_1_1, SP_T1_1_2, SP_T1_1_3, SP_T1_2_1, SP_T1_4_1, SP_T1_4_2, SP_T1_4_3, SP_T1_6_1, SP_T1_7_1, SP_T1_11_1, SP_T1_11_2, SP_T1_13_1, SP_T1_23_1, SP_T1_23_2
• Sham: SP_T1_2_2, SP_T1_2_3, SP_T1_11_3, SP_T1_11_4, SP_T1_12_2, SP_T1_13_4, SP_T1_22_1, SP_T1_22_3
• raw_data: - contains all raw data in Bruker ...

Raw and processed data used for the publication: Götz et al. 2023 Temporal and spatial gene expression profile of stroke recovery genes in mice.

Structure

• input: qPCR files, video recordings of rotating beam and grid walk test
• output: Excel sheets and GraphPad Prism files
• docs: list of animals, abbreviations

Longitudinal MRI (T2-weighted and rs-fMRI) of GFAP-/-/Vim-/- and WT mice; 6 time points over 4 weeks post photothrombotic stroke.

Files:

• MRI_raw_data - contains all raw data in Bruker 2dseq format and the original Bruker folder structure
• MRI_proc_data - contains all data processed with the AIDAmri pipeline. Processing steps: 1) convert Bruker to NIfTI-1 data format, 2) image re-orientation, bias-field correction, brain ...