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Multi-vendor standardized sequence for edited magnetic resonance spectroscopy

Muhammad G. Saleh, Daniel Rimbault, Mark Mikkelsen, Georg Oeltzschner, Anna M. Wang, Dengrong Jiang, Ali Alhamud, Jamie Near, Michael Schär, Ralph Noeske, James B. Murdoch, Lars Ersland (+6 others)
2019 NeuroImage  
In this paper, we describe an effort to develop a new universal MEGA-PRESS sequence with HERMES functionality for the major MR vendor platforms with standardized RF pulse shapes, durations, amplitudes  ...  On each platform, edited MRS experiments were conducted with the vendor-native and universal MEGA-PRESS sequences for GABA (TE = 68 ms) and Lac editing (TE = 140 ms).  ...  Introduction Proton ( 1 H) magnetic resonance spectroscopy (MRS) is a non-invasive tool for measuring endogenous metabolite levels in the human brain to investigate healthy and pathological physiology  ... 
doi:10.1016/j.neuroimage.2019.01.056 pmid:30682536 pmcid:PMC7008948 fatcat:utn5viteb5c6xaw5xrpc3kpmc4

INSPECTOR: free software for magnetic resonance spectroscopy data inspection, processing, simulation and analysis

Martin Gajdošík, Karl Landheer, Kelley M. Swanberg, Christoph Juchem
2021 Scientific Reports  
AbstractIn vivo magnetic resonance spectroscopy (MRS) is a powerful tool for biomedical research and clinical diagnostics, allowing for non-invasive measurement and analysis of small molecules from living  ...  In addition to convenience, the functionalities of INSPECTOR ensure rigorous and consistent data processing throughout multi-experiment and multi-center studies.  ...  MA) as a stand-alone user-friendly software with powerful analytic capabilities for applying magnetic resonance spectroscopy data to biomedical research and ultimately clinical applications 12 .  ... 
doi:10.1038/s41598-021-81193-9 pmid:33483543 fatcat:vxhgbjmir5hk7isj276rks547m

Big GABA: Edited MR spectroscopy at 24 research sites

Mark Mikkelsen, Peter B. Barker, Pallab K. Bhattacharyya, Maiken K. Brix, Pieter F. Buur, Kim M. Cecil, Kimberly L. Chan, David Y.-T. Chen, Alexander R. Craven, Koen Cuypers, Michael Dacko, Niall W. Duncan (+48 others)
2017 NeuroImage  
Magnetic resonance spectroscopy (MRS) is the only biomedical imaging method that can noninvasively detect endogenous signals from the neurotransmitter γ-aminobutyric acid (GABA) in the human brain.  ...  This large-scale multi-vendor, multi-site study seeks to better understand the factors that impact measurement outcomes of GABA-edited MRS.  ...  Introduction Magnetic resonance spectroscopy (MRS) is unique amongst the neuroimaging modalities in detecting endogenous signals from complex molecules in the brain noninvasively.  ... 
doi:10.1016/j.neuroimage.2017.07.021 pmid:28716717 pmcid:PMC5700835 fatcat:t5ernqj6s5cdfhq2twugxt5jjm

NIfTI-MRS: A standard format for magnetic resonance spectroscopic data [article]

William T Clarke, Mark Mikkelsen, Georg Oeltzschner, Tiffany K. Bell, Amirmohammad Shamaei, Brian J. Soher, Uzay E Emir, Martin Wilson
2021 bioRxiv   pre-print
NIfTI-MRS is proposed as a standard MR spectroscopy data format, which is implemented as an extension to the neuroimaging informatics technology initiative (NIfTI) format.Using this standardised format  ...  The conversion software, spec2nii, currently converts fourteen formats to NIfTI-MRS, including DICOM and vendor proprietary formats.ConclusionThe proposed format aims to solve the issue of multiple data  ...  Introduction Magnetic resonance spectroscopy (MRS) is a highly flexible technique which can generate a wide range of sensitive and specific imaging contrasts complementary to the typically water-derived  ... 
doi:10.1101/2021.11.09.467912 fatcat:tbohgeqwbjhx5i2xqnrl7jqkgi

Big GABA II: Water-referenced edited MR spectroscopy at 25 research sites

Mark Mikkelsen, Daniel L. Rimbault, Peter B. Barker, Pallab K. Bhattacharyya, Maiken K. Brix, Pieter F. Buur, Kim M. Cecil, Kimberly L. Chan, David Y.-T. Chen, Alexander R. Craven, Koen Cuypers, Michael Dacko (+54 others)
2019 NeuroImage  
Accurate and reliable quantification of brain metabolites measured in vivo using 1H magnetic resonance spectroscopy (MRS) is a topic of continued interest.  ...  Data from 284 volunteers scanned across 25 research sites were collected using GABA+ (GABA + co-edited macromolecules (MM)) and MM-suppressed GABA editing.  ...  Introduction In vivo 1 H magnetic resonance spectroscopy (MRS) allows noninvasive measurement of brain metabolite concentrations, but it does so only in a relative manner.  ... 
doi:10.1016/j.neuroimage.2019.02.059 pmid:30840905 pmcid:PMC6818968 fatcat:xgcppuidyrddhjprqf3o7pi5fm

Glutamate and glutamine: a review ofin vivoMRS in the human brain

Saadallah Ramadan, Alexander Lin, Peter Stanwell
2013 NMR in Biomedicine  
The present range of magnetic resonance spectroscopy (MRS) methods used to assess Glu and Gln, vary in approach, complexity and outcome, thus the focus of this review is on a description of MRS acquisition  ...  TE-averaging sequences are not usually available from major MRI vendors but can be easily modified from standard PRESS sequence source code.  ...  The implementation of very short echo time techniques requires substantial modification of standard vendor supplied localization sequences.  ... 
doi:10.1002/nbm.3045 pmid:24123328 pmcid:PMC3849600 fatcat:ghwxvycat5csxa5z5mlw2x3eea

Multi-center reproducibility of neurochemical profiles in the human brain at 7 T

B. L. van de Bank, U. E. Emir, V. O. Boer, J. J. A. van Asten, M. C. Maas, J. P. Wijnen, H. E. Kan, G. Oz, D. W. J. Klomp, T. W. J. Scheenen
2015 NMR in Biomedicine  
The same seven subjects were each examined twice using four different 7T MRsystems from two different vendors using an identical semi-LASER spectroscopy sequence.  ...  Purpose-To harmonize data acquisition and post-processing of single voxel proton magnetic resonance spectroscopy ( 1 H-MRS) at 7 Tesla (7T), and to determine metabolite concentrations, accuracy and reproducibility  ...  Acknowledgments We would like to thank the staff of all contributing institutes for their help in arranging and planning the examinations.  ... 
doi:10.1002/nbm.3252 pmid:25581510 pmcid:PMC4339538 fatcat:isj3y2yoabg2pb6ppvpj7p6m4a

In Vivo Magnetic Resonance Spectroscopy Methods for Investigating Cardiac Metabolism

Morteza Esmaeili, Riyas Vettukattil
2022 Metabolites  
Magnetic resonance spectroscopy (MRS) is a non-invasive and non-ionizing technique, enabling in vivo investigation of cardiac metabolism in normal and diseased hearts.  ...  sequences.  ...  as multi-voxel magnetic resonance spectroscopic imaging (MRSI) or chemical shift imaging (CSI) [13, 14] .  ... 
doi:10.3390/metabo12020189 pmid:35208262 pmcid:PMC8877606 fatcat:hifjisrcyfga7nwz54jbssjuv4

Osprey: Open-Source Processing, Reconstruction & Estimation of Magnetic Resonance Spectroscopy Data [article]

Georg Oeltzschner, Helge J. Zoellner, Steve C. N. Hui, Mark Mikkelsen, Muhammad G. Saleh, Sofie Tapper, Richard A. E. Edden
2020 bioRxiv   pre-print
Processing and quantitative analysis of magnetic resonance spectroscopy (MRS) data are far from standardized and require interfacing with third-party software.  ...  Results: Osprey successfully loads, processes, models, and quantifies MRS data acquired with a variety of conventional and spectral editing techniques.  ...  is a new, open-source software environment for the pre-processing, linear-combination modelling, quantification and visualization of magnetic resonance spectroscopy data.  ... 
doi:10.1101/2020.02.12.944207 fatcat:cb6wekhlyfetfh3a5sz24dohta

On the reproducibility of hippocampal MEGA-sLASER GABA MRS at 7T using an optimized analysis pipeline

Yannik Völzke, Eberhard D. Pracht, Elke Hattingen, Desmond H. Y.Tse, Tony Stöcker
2020 Magnetic Resonance Materials in Physics, Biology and Medicine  
The increased spectral dispersion of ultra-high-field spectroscopy allows for reproducible spectral quantification, despite a very broad line width.  ...  However, the low concentration and the overlap of more prominent resonances hamper GABA quantification using MR spectroscopy. The hippocampus plays a pivotal role in neurodegeneration.  ...  For the optimization process of s , two different preprocessing routines were used. Standard processing (SR) was similar to the processing applied in a recent multi-site study [18] .  ... 
doi:10.1007/s10334-020-00879-9 pmid:32865653 pmcid:PMC8154804 fatcat:62iphwbi6rhololh5ae4dwn5t4

NIfTI-MRS format specification

William T Clarke, Martin Wilson
2021 Zenodo  
Data format specification for the NIfTI-MRS file format. NIfTI-MRS is a NIfTI derived format for storing magnetic resonance spectroscopy (MRS) and spectroscopic imaging (MRSI) data.  ...  Documentation for the format is available online.  ...  Whilst a DICOM standard for MRS exists, it is not fully implemented by the vendors, and other DICOM 'hacks' for MRS have resulted in crucial information being stored inconsistently between vendors or contained  ... 
doi:10.5281/zenodo.5084789 fatcat:e4m57xnb4veo3iyzbkoweoauqa

Fully automated macromolecule suppressed single voxel glutamate spectroscopy (FAMOUS SVGS)

Ravi Prakash Reddy Nanga, Hari Hariharan, Ravinder Reddy
2016 Journal of Translational Medicine  
Methods: Here we describe a new localized proton MRS method "Fully Automated MacrOmolecUle Suppressed Single Voxel Glutamate Spectroscopy (FAMOUS SVGS)" for measuring Glu.  ...  Purpose: The aim of the study was to develop and validate a new localized 1 H MRS pulse sequence and automated post-processing software for the quantification of brain Glutamate (Glu) in clinical conditions  ...  Tiejun Zhao from Siemens for providing FASTMAP WIP. Competing interests The authors declare that they have no competing interests. Funding  ... 
doi:10.1186/s12967-016-0970-1 pmid:27456699 pmcid:PMC4960747 fatcat:nkxbfdzz5rb6hhw6w7dkiwu6ca

3D GABA imaging with real-time motion correction, shim update and reacquisition of adiabatic spiral MRSI

Wolfgang Bogner, Borjan Gagoski, Aaron T. Hess, Himanshu Bhat, M. Dylan Tisdall, Andre J.W. van der Kouwe, Bernhard Strasser, Małgorzata Marjańska, Siegfried Trattnig, Ellen Grant, Bruce Rosen, Ovidiu C. Andronesi
2014 NeuroImage  
Magnetic resonance spectroscopy (MRS) is the only way to measure GABA and Glu noninvasively in vivo. GABA detection is particularly challenging and requires special MRS techniques.  ...  The most popular is MEscher-GArwood (MEGA) difference editing with single-voxel Point RESolved Spectroscopy (PRESS) localization.  ...  Resources provided to Martinos Center by the Center for Functional Neuroimaging Technologies, P41EB015896, a P41 Regional Resource supported by the National Institute of Biomedical Imaging and Bioengineering  ... 
doi:10.1016/j.neuroimage.2014.09.032 pmid:25255945 pmcid:PMC4312209 fatcat:sq3d5ijqt5enrei2pbihmmcjba

Myocardial T1 mapping and extracellular volume quantification: a Society for Cardiovascular Magnetic Resonance (SCMR) and CMR Working Group of the European Society of Cardiology consensus statement

James C Moon, Daniel R Messroghli, Peter Kellman, Stefan K Piechnik, Matthew D Robson, Martin Ugander, Peter D Gatehouse, Andrew E Arai, Matthias G Friedrich, Stefan Neubauer, Jeanette Schulz-Menger, Erik B Schelbert
2013 Journal of Cardiovascular Magnetic Resonance  
Rapid innovations in cardiovascular magnetic resonance (CMR) now permit the routine acquisition of quantitative measures of myocardial and blood T1 which are key tissue characteristics.  ...  At present, ECV and native T1 mapping appear sufficiently robust for many diseases; yet more research is required before a large-scale application for clinical decision-making can be recommended.  ...  Establish site normative values for the particular set-up (vendor/field strength/magnet/contrast regime/sequence variant and patient population (age/gender)). ii.  ... 
doi:10.1186/1532-429x-15-92 pmid:24124732 pmcid:PMC3854458 fatcat:2oosc5odgjf3dpinnhjb245fpq

Guidelines for Acquiring and Reporting Clinical Neurospectroscopy

Thao Tran, Stefan Bluml, Sai Merugumala, Hui-Jun Liao, Brian Ross, Alexander Lin
2013 Seminars in neurology  
resonance spectroscopy (MRS) of the brain, or neurospectroscopy, has moved from the realm of academic research into that of the clinical world.  ...  A standard operating procedure used across the three sites is described and high reproducibility across different platforms is shown.  ...  The variance issue, in turn, has inhibited Table 1 Clinical Indications for Magnetic Resonance Spectroscopy 1.  ... 
doi:10.1055/s-0032-1331814 pmid:23361487 fatcat:6ukzagnqt5bghnzy4gnjhr5m6a
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