Abstract
AbstractProton magnetic resonance spectroscopic imaging (1H-MRSI) provides noninvasive evaluation of brain metabolism. However, there are some limitations of 1H-MRSI preventing its wider use in the clinics, including the spectral quality issues, partial volume effect and chemical shift artifact. Additionally, it is necessary to create metabolite maps for analyzing spectral data along with other MRI modalities. In this study, a MATLAB-based open-source data analysis software for 3D 1H-MRSI, called Oryx-MRSI, which includes modules for visualization of raw 1H-MRSI data and LCModel outputs, chemical shift correction, tissue fraction calculation, metabolite map production, and registration onto standard MNI152 brain atlas while providing automatic spectral quality control, is presented. Oryx-MRSI implements region of interest analysis at brain parcellations defined on MNI152 brain atlas. All generated metabolite maps are stored in NIfTI format. Oryx-MRSI is publicly available at https://github.com/sevimcengiz/Oryx-MRSI along with six example datasets.
Publisher
Cold Spring Harbor Laboratory
Reference55 articles.
1. Imaging Neurochemistry and Brain Structure Tracks Clinical Decline and Mechanisms of ALS in Patients;Front Neurol,2020
2. The clinical utility of proton magnetic resonance spectroscopy in traumatic brain injury: recommendations from the ENIGMA MRS working group;Brain Imaging Behav,2021
3. Lipid-suppressed and tissue-fraction corrected metabolic distributions in human central brain structures using 2D (1) H magnetic resonance spectroscopic imaging at 7 T;Brain Behav,2020
4. Fast method for brain image segmentation: application to proton magnetic resonance spectroscopic imaging;Magn Reson Med,2005
5. Brett, M. ., Markiewicz, C. J. ., Hanke, M. ., Côté, M. A. ., Cipollini, B. ., & McCarthy, P. . (2019). Zenodo. freec84. (2019, November 16). nipy/nibabel: 3.0.0rc1 (Version 3.0.0rc1). http://doi.org/10.5281/zenodo.3544468