Generic Acquisition, Database and Analysis Protocol for Quantitative MRI of the Spinal Cord¶
Quantitative spinal cord MRI is fraught with a number of challenges, among which is the lack of standardized imaging protocols. Here we present quantitative MRI protocols (which, collectively, we refer to as the “spine generic protocol”) for the three main MRI vendors (GE, Philips and Siemens), that provide valuable metrics for assessing spinal cord macrostructural and microstructural integrity: T1w and T2w imaging for SC cross-sectional area (CSA) computation, multi-echo gradient echo for gray matter CSA, as well as magnetization transfer and diffusion weighted imaging for assessing white matter microstructure. The spine generic protocol was used in a single-subject reproducibility study across 19+ centers (spanning all three vendors) and in multiple subjects across 42+ centers.
The protocols and datasets are open-access and the data analysis code is open-source. Full documentation, including a description of the processing pipeline with detailed text and video instructions can be found in this website.
The main publications for this project are:
- Cohen-Adad et al. Generic acquisition protocol for quantitative MRI of the spinal cord. Nature Protocols 2021 (doi: 10.1038/s41596-021-00588-0). 📥 PDF
- Cohen-Adad et al. Open-access quantitative MRI data of the spinal cord and reproducibility across participants, sites and manufacturers. Scientific Data 2021 (doi: 10.1038/s41597-021-01026-2). 📥 PDF
Copyright (c) 2019 Julien Cohen-Adad and contributors
Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the “Software”), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:
The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.
THE SOFTWARE IS PROVIDED “AS IS”, WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.