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Towards real-time diffusion imaging : noise correction and inference of the human brain connectivity

Abstract : Most magnetic resonance imaging (MRI) system manufacturers propose a huge set of software applications to post-process the reconstructed MRI data a posteriori, but few of them can run in real-time during the ongoing scan. To our knowledge, apart from solutions dedicated to functional MRI allowing relatively simple experiments or for interventional MRI to perform anatomical scans during surgery, no tool has been developed in the field of diffusion-weighted MRI (dMRI). However, because dMRI scans are extremely sensitive to lots of hardware or subject-based perturbations inducing corrupted data, it can be interesting to investigate the possibility of processing dMRI data directly during the ongoing scan and this thesis is dedicated to this challenging topic. The major contribution of this thesis aimed at providing solutions to denoise dMRI data in real-time. Indeed, the diffusion-weighted signal may be corrupted by a significant level of noise which is not Gaussian anymore, but Rician or noncentral chi. After making a detailed review of the literature, we extended the linear minimum mean square error (LMMSE) estimator and adapted it to our real-time framework with a Kalman filter. We compared its efficiency to the standard Gaussian filtering, difficult to implement, as it requires a modification of the reconstruction pipeline to insert the filter immediately after the demodulation of the acquired signal in the Fourier space. We also developed a parallel Kalman filter to deal with any noise distribution and we showed that its efficiency was quite comparable to the non parallel Kalman filter approach. Last, we addressed the feasibility of performing tractography in real-time in order to infer the structural connectivity online. We hope that this set of methodological developments will help improving and accelerating a diagnosis in case of emergency to check the integrity of white matter fiber bundles.
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Submitted on : Friday, May 10, 2013 - 2:27:14 PM
Last modification on : Tuesday, April 16, 2019 - 6:15:12 AM
Long-term archiving on: : Sunday, August 11, 2013 - 4:08:29 AM

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  • HAL Id : tel-00821493, version 1

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Véronique Brion. Towards real-time diffusion imaging : noise correction and inference of the human brain connectivity. Other [cond-mat.other]. Université Paris Sud - Paris XI, 2013. English. ⟨NNT : 2013PA112058⟩. ⟨tel-00821493⟩

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