Residual learning for 3D motion corrected quantitative MRI: Robust clinical T1, T2 and proton density mappingDownload PDF

10 Feb 2021, 09:48 (modified: 22 Jul 2022, 19:57)MIDL 2021Readers: Everyone
Keywords: 3D multiparametric MRI, motion correction, deep learning, residual learning, multiscale CNN
TL;DR: We propose a 3D residual multiscale CNN that learns the residual error between motion-affected quantitative maps and their motion-free counterparts, enabling retrospective motion correction for fast 3D whole-brain quantitative MRI.
Abstract: Subject motion is one of the major challenges in clinical routine MR imaging. Despite ongoing research, motion correction has remained a complex problem without a universal solution. In advanced quantitative MR techniques, such as MR Fingerprinting, motion does not only affect a single image, like in single-contrast MRI, but disrupts the entire temporal evolution of the magnetization and causes parameter quantification errors due to a mismatch between the acquired and simulated signals. In this work, we present a deep learning-empowered retrospective motion correction for rapid 3D whole-brain multiparametric MRI based on Quantitative Transient-state Imaging (QTI). We propose a patch-based 3D multiscale convolutional neural network (CNN) that learns the residual error, i.e. after initial navigator-based correction, between motion-affected quantitative T1, T2 and proton density maps and their motion-free counterparts. For efficient model training despite limited data availability, we propose a physics-informed simulation to apply continuous motion-patterns to motion-free data. We evaluate the performance of the residual CNN on 1.5T and 3T MRI data of ten healthy volunteers. We analyze the generalizability of the model when applied to real clinical cases, including pediatric and adult patients with large brain lesions. Our study demonstrates that image quality can be significantly improved after correcting for subject motion. This has important implications in clinical setups where large amounts of motion affected data must be discarded.
Registration: I acknowledge that publication of this at MIDL and in the proceedings requires at least one of the authors to register and present the work during the conference.
Authorship: I confirm that I am the author of this work and that it has not been submitted to another publication before.
Paper Type: both
Primary Subject Area: Image Acquisition and Reconstruction
Secondary Subject Area: Application: Radiology
Source Code Url:
Source Latex: zip
11 Replies