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Isotropic non-white matter partial volume effects in constrained spherical deconvolution

Timo Roine, Ben Jeurissen, Daniele Perrone, Jan Aelterman, Alexander Leemans, Wilfried Philips, Jan Sijbers
2014 Frontiers in Neuroinformatics  
In this work, we investigated the isotropic PVEs caused by non-WM tissue in WM voxels on fiber orientations extracted with constrained spherical deconvolution (CSD).  ...  Significant partial volume effects (PVEs) are present in the DW signal due to relatively large voxel sizes.  ...  Diffusion in white matter (WM) neural tracts is anisotropic: it is larger parallel to the tract than in the perpendicular direction.  ... 
doi:10.3389/fninf.2014.00028 pmid:24734018 pmcid:PMC3975100 fatcat:nuebjjw45jarhns7ztxoqxqury

Convexity-constrained and nonnegativity-constrained spherical factorization in diffusion-weighted imaging

Daan Christiaens, Stefan Sunaert, Paul Suetens, Frederik Maes
2017 NeuroImage  
In healthy human brain data, the resulting components are associated with white matter fibres, grey matter, and cerebrospinal fluid.  ...  In this work, we generalize multi-tissue spherical deconvolution to a blind source separation problem under convexity and nonnegativity constraints.  ...  The left column originates from a voxel with 50% WM-GM partial volume effect (PVE).  ... 
doi:10.1016/j.neuroimage.2016.10.040 pmid:27989845 pmcid:PMC5543413 fatcat:4uae2epuwve5dc44c7gklo26zi

Generalized Richardson-Lucy (GRL) for analyzing multi-shell diffusion MRI data

Fenghua Guo, Alexander Leemans, Max A. Viergever, Flavio Dell'Acqua, Alberto De Luca
2020 NeuroImage  
white matter.  ...  beyond white matter.  ...  10 to perform robust spherical deconvolution on single-shell diffusion MRI data while suppressing 11 spurious FOD peaks due to noise or partial volume effects.  ... 
doi:10.1016/j.neuroimage.2020.116948 pmid:32428705 fatcat:sbb3aqmzfzb5tlpxm66shl3zeu

Generalized Richardson-Lucy (GRL) for analyzing multi-shell diffusion MRI data [article]

Fenghua Guo, Alexander Leemans, Max A. Viergever, Flavio Dell'Acqua, Alberto De Luca
2020 arXiv   pre-print
In comparison to dRL, GRL provides sharper FODs and less spurious peaks in presence of partial volume effects and results in a better tract termination at the grey/white matter interface or at the outer  ...  The optimal weighting of multi-shell data in the fit and the robustness to noise and partial volume effects of GRL was studied with synthetic data.  ...  for isotropic contaminations of cerebrospinal fluid in spherical deconvolution.  ... 
arXiv:1910.05372v3 fatcat:yb6o33xpqncjpa6bgqngqtebp4

Convex Non-negative Spherical Factorization of Multi-Shell Diffusion-Weighted Images [chapter]

Daan Christiaens, Frederik Maes, Stefan Sunaert, Paul Suetens
2015 Lecture Notes in Computer Science  
Diffusion-weighted imaging (DWI) allows to probe tissue microstructure non-invasively and study healthy and diseased white matter (WM) in vivo.  ...  Here, we introduce a fully data-driven approach to spherical deconvolution, based on convex non-negative matrix factorization.  ...  Additionally, the presence of partial volume effects (PVE), originating from adjacent grey matter (GM) and cerebrospinal fluid (CSF), has been shown to affect SD [7] .  ... 
doi:10.1007/978-3-319-24553-9_21 fatcat:32b3utncvvep7alciiylyklnbq

Spherical deconvolution with tissue-specific response functions and multi-shell diffusion MRI to estimate multiple fiber orientation distributions (mFODs) [article]

Alberto De Luca, Fenghua Guo, Martijn Froeling, Alexander Leemans
2019 bioRxiv   pre-print
In contrast, spherical deconvolution typically produces suboptimal results in grey matter (GM).  ...  In diffusion MRI, spherical deconvolution approaches can resolve local white matter (WM) fiber orientation distributions (FOD) to produce state-of-the-art fiber tractography reconstructions.  ...  Indeed, the results of simulations, shown in Fig. 1 and Fig. 2 , suggest that this approach allows to effectively disentangle the partial volume effects between mixtures of isotropic (n=1) and anisotropic  ... 
doi:10.1101/739136 fatcat:4x4mijdwcjbbpktnqvmhqyn3ym

Microstructural correlates of 23Na relaxation in human brain at 7 Tesla

Scott C. Kolbe, Warda Syeda, Yasmin Blunck, Rebecca Glarin, Meng Law, Leigh A. Johnston, Jon O. Cleary
2020 NeuroImage  
White matter (restricted anisotropic diffusion) and grey matter (restricted isotropic diffusion) density were calculated from multi-shell multi-tissue constrained spherical deconvolution.  ...  We conclude that sodium T2∗ relaxation parameters are not greatly influenced by relative differences in intra- and extracellular partial volumes.  ...  White matter (restricted anisotropic diffusion) and grey matter (restricted isotropic diffusion) density were calculated from multi-shell multi-tissue constrained spherical deconvolution.  ... 
doi:10.1016/j.neuroimage.2020.116609 pmid:32044439 fatcat:ngqfnyqbjnfiza6nvzavvqoiza

Modelling white matter with spherical deconvolution: How and why?

Flavio Dell'Acqua, J.-Donald Tournier
2018 NMR in Biomedicine  
way to describe the complexity of white matter organization within each brain voxel.  ...  Among several techniques, spherical deconvolution has emerged today as one of the main approaches to model multiple fibre orientations and for tractography applications.  ...  In practice, the dRL-SD algorithm is very effective in suppressing spurious fODF lobes or reducing ringing effects to negligible amplitudes in the presence of partial volume with isotropic or pathological  ... 
doi:10.1002/nbm.3945 pmid:30113753 fatcat:ozoc2z4spvappafb5nld4gqtya

Sparse Solution of Fiber Orientation Distribution Function by Diffusion Decomposition

Fang-Cheng Yeh, Wen-Yih Isaac Tseng, Pedro Antonio Valdes-Sosa
2013 PLoS ONE  
The simulation study showed that diffusion decomposition was more accurate than both constrained spherical deconvolution and ball-and-sticks model.  ...  The phantom study showed that the angular error of diffusion decomposition was significantly lower than those of constrained spherical deconvolution at 30u crossing and ball-and-sticks model at 60u crossing  ...  Kuan-Hung Cho for providing the phantom data and technical assistance in the image acquisition. Author Contributions  ... 
doi:10.1371/journal.pone.0075747 pmid:24146772 pmcid:PMC3795723 fatcat:cpejls75bjb2xoivfjfpcgkvpe

Spherical deconvolution with tissue-specific response functions and multi-shell diffusion MRI to estimate multiple fiber orientation distributions (mFODs)

Alberto De Luca, Fenghua Guo, Martijn Froeling, Alexander Leemans
2020 NeuroImage  
In diffusion MRI, spherical deconvolution approaches can estimate local white matter (WM) fiber orientation distributions (FOD) which can be used to produce fiber tractography reconstructions.  ...  The performance of our method is compared to the current state of the art, multi-shell constrained spherical deconvolution (MSCSD).  ...  Multi-tissue spherical deconvolution approaches have been suggested to further increase the accuracy of FOD reconstructions in WM by accounting for partial volume effects, e.g. in spatial locations where  ... 
doi:10.1016/j.neuroimage.2020.117206 pmid:32745681 fatcat:enpc2pvrlndt3ev2ttasq7jxy4

Learning a Reliable Estimate of the Number of Fiber Directions in Diffusion MRI [chapter]

Thomas Schultz
2012 Lecture Notes in Computer Science  
When combined with the ball-and-stick model, it produces directional estimates comparable to constrained spherical deconvolution, but with significantly smaller variance between re-scans, and at a reduced  ...  The method is shown to result in plausible and reproducible decisions on three repeated scans of the same subject.  ...  The strong spurious peaks that arise in two out of the three single-fiber cases (a) are a known problem of deconvolution, particularly in the presence of partial voluming with isotropic compartments [  ... 
doi:10.1007/978-3-642-33454-2_61 fatcat:jho7dxi5yzdgjjcirzf53mfq4e

Linking spherical mean diffusion weighted signal with intra-axonal volume fraction

Hua Li, Ho Ming Chow, Diane C. Chugani, Harry T. Chugani
2019 Magnetic Resonance Imaging  
At high b-values (b ≥ 3000 s/mm2), S¯ is linearly related to Vin, and S¯ provides similar contrast with Vin in white matter.  ...  However, the conventional diffusion tensor imaging (DTI) is inadequate for characterizing fiber direction or fiber density in voxels with crossing fibers in brain white matter.  ...  Another difference between AFD total ms and AFD total ss is that AFD total ms is based on a multi-tissue model which is less sensitive to partial volume effects at gray matter/white matter interface [  ... 
doi:10.1016/j.mri.2018.11.006 pmid:30439515 pmcid:PMC6331230 fatcat:zvl44m5kijb3rijhobbmsb6yte

A Novel Richardson-Lucy Model with Dictionary Basis and Spatial Regularization for Isolating Isotropic Signals

Tiantian Xu, Yuanjing Feng, Ye Wu, Qingrun Zeng, Jun Zhang, Jianzhong He, Qichuan Zhuge, Pew-Thian Yap
2017 PLoS ONE  
Partial volume effects (PVEs) exist in sampling signal for many physical and actual reasons, which lead to inaccurate fiber imaging.  ...  We then put forward a new index P iso , which is a part of fODF to quantify white and gray matter.  ...  Only diffusion-weighted MRI (DW-MRI) can provide a unique, non-invasive technique to study the microscopic structure of brain white matter (WM) in vivo [2] [3] [4] .  ... 
doi:10.1371/journal.pone.0168864 pmid:28081561 pmcid:PMC5233428 fatcat:hsmfpo4h4fgz5b3qtb6ys5frua

Ball and rackets: Inferring fiber fanning from diffusion-weighted MRI

Stamatios N. Sotiropoulos, Timothy E.J. Behrens, Saad Jbabdi
2012 NeuroImage  
white matter regions.  ...  We also perform a qualitative comparison between our parametric approach and five popular non-parametric techniques that are based on orientation distribution functions (ODFs).  ...  Furthermore, Dr Donald Tournier and Dr Kiran Seunarine for assisting us with the Mrtrix spherical deconvolution and the Camino PASMRI implementations, respectively.  ... 
doi:10.1016/j.neuroimage.2012.01.056 pmid:22270351 pmcid:PMC3304013 fatcat:oyb5aluexjcu7mggak2g373mie

White matter organization in developmental coordination disorder: A pilot study exploring the added value of constrained spherical deconvolution

Christian Hyde, Ian Fuelscher, Peter G. Enticott, Derek K. Jones, Shawna Farquharson, Tim J. Silk, Jacqueline Williams, Karen Caeyenberghs
2019 NeuroImage: Clinical  
In response to limitations of the commonly adopted DTI approach, the present study employed a framework that can reconcile the 'crossing fibre' problem (i.e., constrained spherical deconvolution- CSD)  ...  trend for decreased tract volume of the right SLF (with medium-large effect size, Cohen's d = 0.73).  ...  NOTE: CST-corticospinal tract; CSD-constrained spherical deconvolution; DTI-diffusion tensor imaging.C.Hyde et al.  ... 
doi:10.1016/j.nicl.2018.101625 pmid:30552074 pmcid:PMC6411781 fatcat:ll7mibnxa5aslfgol3ntly6w64
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