Accelerated MRI reconstructs images of clinical anatomies from sparsely sampled signal data to reduce patient scan times. While recent works have leveraged deep learning to accomplish this task, such approaches have often only been explored in simulated environments where there is no signal corruption or resource limitations. In this work, we explore augmentations to neural network MRI image reconstructors to enhance their clinical relevancy. Namely, we propose a ConvNet model for detecting sources of image artifacts that achieves a classifier $F_2$ score of 79.1%. We also demonstrate that training reconstructors on MR signal data with variable acceleration factors can improve their average performance during a clinical patient scan by up to 2%. We offer a loss function to overcome catastrophic forgetting when models learn to reconstruct MR images of multiple anatomies and orientations. Finally, we propose a method for using simulated phantom data to pre-train reconstructors in situations with limited clinically acquired datasets and compute capabilities. Our results provide a potential path forward for clinical adaptation of accelerated MRI.
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The StyleGAN family succeed in high-fidelity image generation and allow for flexible and plausible editing of generated images by manipulating the semantic-rich latent style space.However, projecting a real image into its latent space encounters an inherent trade-off between inversion quality and editability. Existing encoder-based or optimization-based StyleGAN inversion methods attempt to mitigate the trade-off but see limited performance. To fundamentally resolve this problem, we propose a novel two-phase framework by designating two separate networks to tackle editing and reconstruction respectively, instead of balancing the two. Specifically, in Phase I, a W-space-oriented StyleGAN inversion network is trained and used to perform image inversion and editing, which assures the editability but sacrifices reconstruction quality. In Phase II, a carefully designed rectifying network is utilized to rectify the inversion errors and perform ideal reconstruction. Experimental results show that our approach yields near-perfect reconstructions without sacrificing the editability, thus allowing accurate manipulation of real images. Further, we evaluate the performance of our rectifying network, and see great generalizability towards unseen manipulation types and out-of-domain images.
Semantic image segmentation is a central and challenging task in autonomous driving, addressed by training deep models. Since this training draws to a curse of human-based image labeling, using synthetic images with automatically generated labels together with unlabeled real-world images is a promising alternative. This implies to address an unsupervised domain adaptation (UDA) problem. In this paper, we propose a new co-training procedure for synth-to-real UDA of semantic segmentation models. It consists of a self-training stage, which provides two domain-adapted models, and a model collaboration loop for the mutual improvement of these two models. These models are then used to provide the final semantic segmentation labels (pseudo-labels) for the real-world images. The overall procedure treats the deep models as black boxes and drives their collaboration at the level of pseudo-labeled target images, i.e., neither modifying loss functions is required, nor explicit feature alignment. We test our proposal on standard synthetic and real-world datasets for on-board semantic segmentation. Our procedure shows improvements ranging from ~13 to ~26 mIoU points over baselines, so establishing new state-of-the-art results.
Generative adversarial networks (GANs) are one powerful type of deep learning models that have been successfully utilized in numerous fields. They belong to a broader family called generative methods, which generate new data with a probabilistic model by learning sample distribution from real examples. In the clinical context, GANs have shown enhanced capabilities in capturing spatially complex, nonlinear, and potentially subtle disease effects compared to traditional generative methods. This review appraises the existing literature on the applications of GANs in imaging studies of various neurological conditions, including Alzheimer's disease, brain tumors, brain aging, and multiple sclerosis. We provide an intuitive explanation of various GAN methods for each application and further discuss the main challenges, open questions, and promising future directions of leveraging GANs in neuroimaging. We aim to bridge the gap between advanced deep learning methods and neurology research by highlighting how GANs can be leveraged to support clinical decision making and contribute to a better understanding of the structural and functional patterns of brain diseases.
During the past decades, evolutionary computation (EC) has demonstrated promising potential in solving various complex optimization problems of relatively small scales. Nowadays, however, ongoing developments in modern science and engineering are bringing increasingly grave challenges to the conventional EC paradigm in terms of scalability. As problem scales increase, on the one hand, the encoding spaces (i.e., dimensions of the decision vectors) are intrinsically larger; on the other hand, EC algorithms often require growing numbers of function evaluations (and probably larger population sizes as well) to work properly. To meet such emerging challenges, not only does it require delicate algorithm designs, but more importantly, a high-performance computing framework is indispensable. Hence, we develop a distributed GPU-accelerated algorithm library -- EvoX. First, we propose a generalized workflow for implementing general EC algorithms. Second, we design a scalable computing framework for running EC algorithms on distributed GPU devices. Third, we provide user-friendly interfaces to both researchers and practitioners for benchmark studies as well as extended real-world applications. Empirically, we assess the promising scalability of EvoX via a series of benchmark experiments with problem dimensions/population sizes up to millions. Moreover, we demonstrate the easy usability of EvoX by applying it to solving reinforcement learning tasks on OpenAI Gym. To the best of our knowledge, this is the first library supporting distributed GPU computing in the EC literature. The code of EvoX is available at //github.com/EMI-Group/EvoX.
Guided diffusion is a technique for conditioning the output of a diffusion model at sampling time without retraining the network for each specific task. One drawback of diffusion models, however, is their slow sampling process. Recent techniques can accelerate unguided sampling by applying high-order numerical methods to the sampling process when viewed as differential equations. On the contrary, we discover that the same techniques do not work for guided sampling, and little has been explored about its acceleration. This paper explores the culprit of this problem and provides a solution based on operator splitting methods, motivated by our key finding that classical high-order numerical methods are unsuitable for the conditional function. Our proposed method can re-utilize the high-order methods for guided sampling and can generate images with the same quality as a 250-step DDIM baseline using 32-58% less sampling time on ImageNet256. We also demonstrate usage on a wide variety of conditional generation tasks, such as text-to-image generation, colorization, inpainting, and super-resolution.
High-resolution (HR) MRI is critical in assisting the doctor's diagnosis and image-guided treatment but is highly time-consuming and costly to acquire. Therefore, deep learning-based super-resolution reconstruction (SRR) has been investigated to generate super-resolution images from low-resolution (LR) images. Training such neural networks requires authentic HR and LR image pairs, which are difficult to acquire due to patient movement during and between the acquisitions of LR and HR images. Rigid movements of hard tissues can be corrected with image registration. In contrast, the alignment of deformed soft tissues is challenging, making it impractical to train neural networks with authentic HR and LR image pairs. Existing studies in the literature focused on SRR using authentic HR images and down-sampled synthetic LR images. Yet, the difference in degradation representations between synthetic and authentic LR images suppresses the quality of SRR from authentic LR images. In this work, we propose a novel Unsupervised Degradation Adaptation Network (UDEAN) to mitigate this problem. Our network consists of the degradation learning network and the SRR network. The degradation learning network down-samples the HR images by addressing the degradation representation of the misaligned or unpaired LR images. The SRR network learns the mapping from the down-sampled HR images to the original ones. Experimental results show that our method outperforms state-of-the-art networks and can potentially be applied in real clinical settings.
Hierarchical structures are popular in recent vision transformers, however, they require sophisticated designs and massive datasets to work well. In this paper, we explore the idea of nesting basic local transformers on non-overlapping image blocks and aggregating them in a hierarchical way. We find that the block aggregation function plays a critical role in enabling cross-block non-local information communication. This observation leads us to design a simplified architecture that requires minor code changes upon the original vision transformer. The benefits of the proposed judiciously-selected design are threefold: (1) NesT converges faster and requires much less training data to achieve good generalization on both ImageNet and small datasets like CIFAR; (2) when extending our key ideas to image generation, NesT leads to a strong decoder that is 8$\times$ faster than previous transformer-based generators; and (3) we show that decoupling the feature learning and abstraction processes via this nested hierarchy in our design enables constructing a novel method (named GradCAT) for visually interpreting the learned model. Source code is available //github.com/google-research/nested-transformer.
Deep convolutional neural networks (CNNs) have recently achieved great success in many visual recognition tasks. However, existing deep neural network models are computationally expensive and memory intensive, hindering their deployment in devices with low memory resources or in applications with strict latency requirements. Therefore, a natural thought is to perform model compression and acceleration in deep networks without significantly decreasing the model performance. During the past few years, tremendous progress has been made in this area. In this paper, we survey the recent advanced techniques for compacting and accelerating CNNs model developed. These techniques are roughly categorized into four schemes: parameter pruning and sharing, low-rank factorization, transferred/compact convolutional filters, and knowledge distillation. Methods of parameter pruning and sharing will be described at the beginning, after that the other techniques will be introduced. For each scheme, we provide insightful analysis regarding the performance, related applications, advantages, and drawbacks etc. Then we will go through a few very recent additional successful methods, for example, dynamic capacity networks and stochastic depths networks. After that, we survey the evaluation matrix, the main datasets used for evaluating the model performance and recent benchmarking efforts. Finally, we conclude this paper, discuss remaining challenges and possible directions on this topic.
Deep Convolutional Neural Networks have pushed the state-of-the art for semantic segmentation provided that a large amount of images together with pixel-wise annotations is available. Data collection is expensive and a solution to alleviate it is to use transfer learning. This reduces the amount of annotated data required for the network training but it does not get rid of this heavy processing step. We propose a method of transfer learning without annotations on the target task for datasets with redundant content and distinct pixel distributions. Our method takes advantage of the approximate content alignment of the images between two datasets when the approximation error prevents the reuse of annotation from one dataset to another. Given the annotations for only one dataset, we train a first network in a supervised manner. This network autonomously learns to generate deep data representations relevant to the semantic segmentation. Then the images in the new dataset, we train a new network to generate a deep data representation that matches the one from the first network on the previous dataset. The training consists in a regression between feature maps and does not require any annotations on the new dataset. We show that this method reaches performances similar to a classic transfer learning on the PASCAL VOC dataset with synthetic transformations.
Convolutional networks (ConvNets) have achieved great successes in various challenging vision tasks. However, the performance of ConvNets would degrade when encountering the domain shift. The domain adaptation is more significant while challenging in the field of biomedical image analysis, where cross-modality data have largely different distributions. Given that annotating the medical data is especially expensive, the supervised transfer learning approaches are not quite optimal. In this paper, we propose an unsupervised domain adaptation framework with adversarial learning for cross-modality biomedical image segmentations. Specifically, our model is based on a dilated fully convolutional network for pixel-wise prediction. Moreover, we build a plug-and-play domain adaptation module (DAM) to map the target input to features which are aligned with source domain feature space. A domain critic module (DCM) is set up for discriminating the feature space of both domains. We optimize the DAM and DCM via an adversarial loss without using any target domain label. Our proposed method is validated by adapting a ConvNet trained with MRI images to unpaired CT data for cardiac structures segmentations, and achieved very promising results.
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