Compressed Sensing MRI Reconstruction Regularized by VAEs with Structured Image Covariance (2210.14586v2)
Abstract: Objective: This paper investigates how generative models, trained on ground-truth images, can be used \changes{as} priors for inverse problems, penalizing reconstructions far from images the generator can produce. The aim is that learned regularization will provide complex data-driven priors to inverse problems while still retaining the control and insight of a variational regularization method. Moreover, unsupervised learning, without paired training data, allows the learned regularizer to remain flexible to changes in the forward problem such as noise level, sampling pattern or coil sensitivities in MRI. Approach: We utilize variational autoencoders (VAEs) that generate not only an image but also a covariance uncertainty matrix for each image. The covariance can model changing uncertainty dependencies caused by structure in the image, such as edges or objects, and provides a new distance metric from the manifold of learned images. Main results: We evaluate these novel generative regularizers on retrospectively sub-sampled real-valued MRI measurements from the fastMRI dataset. We compare our proposed learned regularization against other unlearned regularization approaches and unsupervised and supervised deep learning methods. Significance: Our results show that the proposed method is competitive with other state-of-the-art methods and behaves consistently with changing sampling patterns and noise levels.
- Jonas Adler, Holger Kohr and Ozan Öktem “Operator Discretization Library (ODL)”, 2017
- “Plug-and-Play Methods for Magnetic Resonance Imaging: Using Denoisers for Image Recovery” In IEEE Signal Processing Magazine 37, 2020, pp. 105–116
- “On instabilities of deep learning in image reconstruction and the potential costs of AI” In Proceedings of the National Academy of Sciences, 2020, pp. 201907377
- Sanjeev Arora, Andrej Risteski and Yi Zhang “Do GANs Learn the Distribution? Some Theory and Empirics” In ICLR, 2018, pp. 1–16
- “Solving inverse problems using data-driven models” In Acta Numerica 28, 2019, pp. 1–174
- “Compressed sensing using generative models” In ICML, 2017, pp. 822–841
- “Distributed optimization and statistical learning via the alternating direction method of multipliers” In Foundations and Trends in Machine learning 3 Now Publishers, Inc., 2011, pp. 1–122
- “Convex Optimization” In Convex Optimization, 2004
- Leon Bungert and Matthias J. Ehrhardt “Robust Image Reconstruction with Misaligned Structural Information” In IEEE Access 8, 2020, pp. 222944–222955 DOI: 10.1109/ACCESS.2020.3043638
- “A first-order primal-dual algorithm for convex problems with applications to imaging” In Journal of Mathematical Imaging and Vision 40 Springer, 2011, pp. 120–145
- A. Clark “Pillow (Python Imaging Library Fork)”, 2015
- Manik Dhar, Aditya Grover and Stefano Ermon “Modeling Sparse Deviations for Compressed Sensing using Generative Models” In ICML 3, 2018, pp. 1990–2005
- “Training vaes under structured residuals” In arXiv preprint arXiv:1804.01050, 2018
- “Structured Uncertainty Prediction Networks” In CVPR, 2018, pp. 5477–5485
- Margaret Duff, Neill D. F. Campbell and Matthias J. Ehrhardt “Regularising Inverse Problems with Generative Machine Learning Models” In ArXiv Preprint, 2021
- “Generative adversarial nets” In NeurIPS, 2014, pp. 2672–2680
- “A Generative Variational Model for Inverse Problems in Imaging” In SIAM Journal on Mathematics of Data Science 4, 2022, pp. 306–335
- “Learning a variational network for reconstruction of accelerated MRI data” In Magnetic Resonance in Medicine 79, 2018, pp. 3055–3071
- “Deep learning for undersampled MRI reconstruction” In Physics in Medicine and Biology 63, 2018
- “Robust Compressed Sensing MRI with Deep Generative Priors” In NeurIPS, 2021
- Diederik P. Kingma and Prafulla Dhariwal “Glow: Generative flow with invertible 1x1 convolutions” In NeurIPS, 2018, pp. 10215–10224
- Diederik P. Kingma and Max Welling “Auto-encoding variational Bayes” In ICLR, 2014
- “Second order total generalized variation (TGV) for MRI” In Magnetic Resonance in Medicine 65, 2011, pp. 480–491
- “fastMRI: A Publicly Available Raw k-Space and DICOM Dataset of Knee Images for Accelerated MR Image Reconstruction Using Machine Learning” In Radiology: Artificial Intelligence 2, 2020
- Michael Lustig, David Donoho and John M. Pauly “Sparse MRI: The application of compressed sensing for rapid MR imaging” In Magnetic Resonance in Medicine 58, 2007, pp. 1182–1195
- “Deep generative adversarial neural networks for compressive sensing MRI” In IEEE Transactions on Medical Imaging 38, 2019, pp. 167–179
- “Stochastic Segmentation Networks: Modelling Spatially Correlated Aleatoric Uncertainty” In NeurIPS 33 Curran Associates, Inc., 2020, pp. 12756–12767
- “Inverse GANs for accelerated MRI reconstruction” SPIE-Intl Soc Optical Eng, 2019, pp. 45
- “Eter-net: End to end mr image reconstruction using recurrent neural network” In Lecture Notes in Computer Science, 2018
- “SENSE: sensitivity encoding for fast MRI.” In Magnetic resonance in medicine 42, 1999, pp. 952–962
- Tran Minh Quan, Thanh Nguyen-Duc and Won Ki Jeong “Compressed Sensing MRI Reconstruction Using a Generative Adversarial Network With a Cyclic Loss” In IEEE Transactions on Medical Imaging 37 Institute of ElectricalElectronics Engineers Inc., 2018, pp. 1488–1497
- Danilo Jimenez Rezende and Shakir Mohamed “Variational inference with normalizing flows” In ICML 2, 2015, pp. 1530–1538
- Stefan Roth and Michael J Black “Fields of experts” In International Journal of Computer Vision 82 Springer, 2009, pp. 205–229
- Leonid I. Rudin, Stanley Osher and Emad Fatemi “Nonlinear total variation based noise removal algorithms” In Physica D: Nonlinear Phenomena 60, 1992, pp. 259–268
- “An introduction to deep generative modeling” In GAMM‐Mitteilungen 44 Wiley Online Library, 2021
- “Plug-and-play methods provably converge with properly trained denoisers” In ICML, 2019, pp. 5546–5557 PMLR URL: https://github.com/uclaopt/Provable_Plug_and_Play
- Subarna Tripathi, Zachary C. Lipton and Truong Q. Nguyen “Correction by Projection: Denoising Images with Generative Adversarial Networks” In ArXiv Preprint, 2018
- Dmitry Ulyanov, Andrea Vedaldi and Victor Lempitsky “Deep Image Prior” In International Journal of Computer Vision, 2020, pp. 1867–1888
- “Accelerating magnetic resonance imaging via deep learning” In Proceedings - International Symposium on Biomedical Imaging 2016-June IEEE Computer Society, 2016, pp. 514–517
- “Convex optimization algorithms in medical image reconstruction—in the age of AI” In Physics in Medicine and Biology 67, 2022, pp. 07TR01
- “fastMRI: An Open Dataset and Benchmarks for Accelerated MRI” In ArXiv Preprint, 2018
- Chen Zhang, Riccardo Barbano and Bangti Jin “Conditional Variational Autoencoder for Learned Image Reconstruction” In Computation 9.11 MDPI, 2021, pp. 114
- “Image reconstruction by domain-transform manifold learning” In Nature 555 Macmillan Publishers Limited, part of Springer Nature. All rights reserved., 2018, pp. 487–492