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Journal ArticleDOI

Four in vivo g‐ratio‐weighted imaging methods: Comparability and repeatability at the group level

01 Jan 2018-Human Brain Mapping (John Wiley & Sons, Ltd)-Vol. 39, Iss: 1, pp 24-41
TL;DR: The data showed that repeatability and comparability depend largely on the marker for the FVF (NODDI outperformed TFD), and that they were improved by masking, and that the calibration procedure is crucial, for example, calibration to a lower g‐ratio value than the commonly used one.
Abstract: A recent method, denoted in vivo g-ratio-weighted imaging, has related the microscopic g-ratio, only accessible by ex vivo histology, to noninvasive MRI markers for the fiber volume fraction (FVF) and myelin volume fraction (MVF). Different MRI markers have been proposed for g-ratio weighted imaging, leaving open the question which combination of imaging markers is optimal. To address this question, the repeatability and comparability of four g-ratio methods based on different combinations of, respectively, two imaging markers for FVF (tract-fiber density, TFD, and neurite orientation dispersion and density imaging, NODDI) and two imaging markers for MVF (magnetization transfer saturation rate, MT, and, from proton density maps, macromolecular tissue volume, MTV) were tested in a scan-rescan experiment in two groups. Moreover, it was tested how the repeatability and comparability were affected by two key processing steps, namely the masking of unreliable voxels (e.g., due to partial volume effects) at the group level and the calibration value used to link MRI markers to MVF (and FVF). Our data showed that repeatability and comparability depend largely on the marker for the FVF (NODDI outperformed TFD), and that they were improved by masking. Overall, the g-ratio method based on NODDI and MT showed the highest repeatability (90%) and lowest variability between groups (3.5%). Finally, our results indicate that the calibration procedure is crucial, for example, calibration to a lower g-ratio value (g = 0.6) than the commonly used one (g = 0.7) can change not only repeatability and comparability but also the reported dependency on the FVF imaging marker. Hum Brain Mapp 39:24-41, 2018. © 2017 Wiley Periodicals, Inc.

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Citations
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TL;DR: Paul Tofts as mentioned in this paper has published a comprehensive book on magnetic resonance (MR) techniques that will appeal to the neurologist/neuroradiologist as well as the physicist and researcher.
Abstract: P Tofts. Chichester: John Wiley & Sons, 2003, pp 617, £175.00. ISBN 0-470-84721-2 We have waited for a long time for a comprehensive book on magnetic resonance (MR) techniques that will appeal to the neurologist/neuroradiologist as well as the physicist and researcher. A book that is right up to date and is relevant across the board for all who are interested in the technique and that deals with quantification. Paul Tofts has produced a book that is in the coffee table style, in the best sense of …

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Journal ArticleDOI
TL;DR: The hMRI-toolbox is introduced, an open-source, easy-to-use tool available on GitHub, for qMRI data handling and processing, and can be readily combined with existing SPM toolboxes for estimating diffusion MRI parameter maps.

151 citations


Cites methods from "Four in vivo g‐ratio‐weighted imagi..."

  • ...An example for such a direct extension of the hMRI-toolbox could be the MR g-ratio model (Stikov et al. 2015; Mohammadi et al. 2015; Ellerbrock and Mohammadi 2018)....

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  • ...Two correction methods, based on extrapolation of the data to TE = 0 (Ellerbrock and Mohammadi 2018) or relying on the estimatedR 2 maps respectively, are implemented in the toolbox (Balteau et al....

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  • ...Two correction methods, based on extrapolation of the data to TE ¼ 0 (Ellerbrock and Mohammadi, 2018) or relying on the estimated R⋆2 maps respectively, are implemented in the toolbox (Balteau et al., 2018)....

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  • ...An example for such a direct extension of the hMRI-toolbox could be the MR g-ratio model (Stikov et al., 2015; Mohammadi et al., 2015; Ellerbrock and Mohammadi, 2018)....

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Journal ArticleDOI
TL;DR: This review of recent literature that has applied and developed MRI‐based in vivo histology to probe the microstructure of the human neocortex, focusing specifically on myelin, iron, and neuronal fibre mapping finds applications such as cortical parcellation and investigation of cortical iron deposition with age are already contributing to the frontiers of knowledge in neuroscience.

104 citations

Journal ArticleDOI
28 Jun 2021
TL;DR: Advances in concepts, instrumentation, biophysical models and validation approaches facilitating this rapidly developing field are discussed, pointing out challenges and the latest advances in this field.
Abstract: Quantitative magnetic resonance imaging (qMRI) goes beyond conventional MRI, which aims primarily at local image contrast. It provides specific physical parameters related to the nuclear spin of protons in water, such as relaxation times. These parameters carry information about the local microstructural environment of the protons (such as myelin in the brain). Non-invasive in vivo histology using MRI (hMRI) aims to use this information to directly characterize biological tissue microstructure, partially replacing or complementing classical invasive histology. The understanding of MRI tissue contrast provided by hMRI is, in turn, crucial for further improvements of qMRI, and they should be considered closely interlinked. We discuss concepts, models and validation approaches, pointing out challenges and the latest advances in this field. Further, we point out links to physics, including computational and analytical approaches and developments in materials science and photonics, that aid in reference data acquisition and model validation. Quantitative magnetic resonance imaging and in vivo histology go beyond standard magnetic resonance imaging, aiming at characterizing tissue microstructure of the living brain. This Technical Review discusses advances in concepts, instrumentation, biophysical models and validation approaches facilitating this rapidly developing field.

92 citations

Journal ArticleDOI
TL;DR: Overall, MRI-based myelin imaging methods show a fairly good correlation with histology and a good reproducibility, however, the amount of validation data is too limited and the variability in performance between studies is too large to select the optimal MRI method for myelin quantification yet.

66 citations

References
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Journal ArticleDOI
TL;DR: DARTEL has been applied to intersubject registration of 471 whole brain images, and the resulting deformations were evaluated in terms of how well they encode the shape information necessary to separate male and female subjects and to predict the ages of the subjects.

6,999 citations


"Four in vivo g‐ratio‐weighted imagi..." refers methods in this paper

  • ...Then, the data were spatially normalized to MNI space using the DARTEL SPM software [Ashburner, 2007]....

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Journal ArticleDOI
TL;DR: TBSS aims to improve the sensitivity, objectivity and interpretability of analysis of multi-subject diffusion imaging studies by solving the question of how to align FA images from multiple subjects in a way that allows for valid conclusions to be drawn from the subsequent voxelwise analysis.

5,959 citations


Additional excerpts

  • ...Another approach to reduce partial volume effects in the g-ratio maps could be skeletonization toward the tract center, which has been previously proposed for FA maps [Smith et al., 2006]....

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Journal ArticleDOI
TL;DR: This technique, GeneRalized Autocalibrating Partially Parallel Acquisitions (GRAPPA) is an extension of both the PILS and VD‐AUTO‐SMASH reconstruction techniques and provides unaliased images from each component coil prior to image combination.
Abstract: In this study, a novel partially parallel acquisition (PPA) method is presented which can be used to accelerate image acquisition using an RF coil array for spatial encoding. This technique, GeneRalized Autocalibrating Partially Parallel Acquisitions (GRAPPA) is an extension of both the PILS and VD-AUTO-SMASH reconstruction techniques. As in those previous methods, a detailed, highly accurate RF field map is not needed prior to reconstruction in GRAPPA. This information is obtained from several k-space lines which are acquired in addition to the normal image acquisition. As in PILS, the GRAPPA reconstruction algorithm provides unaliased images from each component coil prior to image combination. This results in even higher SNR and better image quality since the steps of image reconstruction and image combination are performed in separate steps. After introducing the GRAPPA technique, primary focus is given to issues related to the practical implementation of GRAPPA, including the reconstruction algorithm as well as analysis of SNR in the resulting images. Finally, in vivo GRAPPA images are shown which demonstrate the utility of the technique.

5,022 citations


"Four in vivo g‐ratio‐weighted imagi..." refers methods in this paper

  • ...DWI measurements were performed with parallel imaging (GRAPPA, in-plane acceleration factor 2) [Griswold et al., 2002] and simultaneous multislice acquisitions (“multiband,” slice acceleration factor 2) [Feinberg et al., 2010; Moeller et al., 2010; Xu et al., 2013] as described in Setsompop et al.…...

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Journal ArticleDOI
TL;DR: A new, MATLAB based toolbox for the SPM2 software package is introduced which enables the integration of probabilistic cytoarchitectonic maps and results of functional imaging studies and an easy-to-use tool for the integrated analysis of functional and anatomical data in a common reference space.

3,911 citations


"Four in vivo g‐ratio‐weighted imagi..." refers methods in this paper

  • ...…group average g-ratios were calculated within specific fiber tracts in MNI space, as defined in the white matter atlas of the Anatomy toolbox [Eickhoff et al., 2005]: callosal body (cb), corticospinal tracts (ct), cingulum (cing), inferior occipitofrontal fasciculus (iof), optic radiation…...

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  • ...The group average g-ratios were calculated within specific fiber tracts in MNI space, as defined in the white matter atlas of the Anatomy toolbox [Eickhoff et al., 2005]: callosal body (cb), corticospinal tracts (ct), cingulum (cing), inferior occipitofrontal fasciculus (iof), optic radiation (or), and superior longitudinal fasciculus (slf) (Fig....

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  • ...The mean gratio values in white matter tracts were calculated based on the J€ulich atlas for white matter [Eickhoff et al., 2005]....

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  • ...The mean gratio values in white matter tracts were calculated based on the J€ ulich atlas for white matter [Eickhoff et al., 2005]....

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Journal ArticleDOI
TL;DR: NODDI provides sensible neurite density and orientation dispersion estimates, thereby disentangling two key contributing factors to FA and enabling the analysis of each factor individually, and demonstrates the feasibility of NODDI even for the most time-sensitive clinical applications, such as neonatal and dementia imaging.

2,354 citations


"Four in vivo g‐ratio‐weighted imagi..." refers methods in this paper

  • ...Typical qMRI markers for FVF are based on: (i) Neurite orientation dispersion and density imaging (NODDI) [Zhang et al., 2012] as used, for example, in Stikov et al. [2015] and (ii) tractfiber density (TFD) [Reisert et al. 2013], as used in Mohammadi et al. [2015], or (iii) the diffusion tensor…...

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  • ...Typical qMRI markers for FVF are based on: (i) Neurite orientation dispersion and density imaging (NODDI) [Zhang et al., 2012] as used, for example, in Stikov et al....

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  • ...For calculation of NODDI parameter maps, the NODDI toolbox [Zhang et al., 2012] was used....

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