3-D T1 relaxation time measurements in an equine model of subtle post-traumatic osteoarthritis using MB-SWIFT

This dataset contains Key analysis and plotting scripts, data, and sample images.

3-D T1 relaxation time measurements in equine model of post-traumatic osteoarthritis using MB-SWIFT

Journal of Orthopaedic Research | DOI: 10.1002/jor.25629

Swetha Pala (1), Nina Hänninen (1,2), Ali Mohammadi(1), Mohammadhossein Ebrahimi (1,2), Nikae C.R. te Moller(3), Harold Brommer(3), P. René van Weeren (3), Janne T.A. Mäkelä (1), Rami K. Korhonen (1), Isaac O. Afara(1), Juha Töyräs (1,4,5), Santtu Mikkonen (1), Mikko J. Nissi (1*), Olli Nykänen (1,2)

    1Department of Applied Physics, University of Eastern Finland 
    2Research Unit of Medical Imaging, Physics and Technology, University of Oulu
    3Department of Clinical Sciences, Faculty of Veterinary Medicine, Utrecht University
    4Science Service Center, Kuopio University Hospital, Kuopio, Finland
    5School of Information Technology and Electrical Engineering, The University of Queensland 

*Corresponding author
Mikko J. Nissi
Department of Technical Physics
University of Eastern Finland, Kuopio Finland
POB 1627
70211 Kuopio
mikko.nissi@uef.fi
+358-50-5955517
Running title: ‘3D T1 of mild PTOA using MB-SWIFT’

Keywords: Quantitative MRI, T1 relaxation, equine model, post-traumatic osteoarthritis, proteoglycan content.

Included folders and files are:
- Article_figures: all figures published in the manuscript (.svg format)
- Data: Raw MRI data files per flip angle (phase & magnitude images) from 28 samples and corresponding fitted T1 maps within respective folders. SPSS structured data files used for statistical analysis.
- Matlab scripts: Matlab functions used for data processing and T1 computation, aedes plugins, and data analysis with subfolders and files:
    - aedes_plugins: plugins for aedes (http://aedes.uef.fi) and scripts for calculation of surface visualisations from relaxation time maps and auto-segmented mesh.   
    - Data processing and T1 computation: Scripts for non-linear 3D T1 fitting.      
    - Analysis: Key scripts used for analysis and plotting.

- README.txt: this file describing the contents of the dataset.

See more info in separate readme files included in sub-folders.

(Swetha Pala, 31 May 2023)