Pre-training is essential to deep learning model performance, especially in medical image analysis tasks where limited training data are available. However, existing pre-training methods are inflexible as the pre-trained weights of one model cannot be reused by other network architectures. In this paper, we propose an architecture-irrelevant hyper-initializer, which can initialize any given network architecture well after being pre-trained for only once. The proposed initializer is a hypernetwork which takes a downstream architecture as input graphs and outputs the initialization parameters of the respective architecture. We show the effectiveness and efficiency of the hyper-initializer through extensive experimental results on multiple medical imaging modalities, especially in data-limited fields. Moreover, we prove that the proposed algorithm can be reused as a favorable plug-and-play initializer for any downstream architecture and task (both classification and segmentation) of the same modality.
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Weight sharing is a popular approach to reduce the cost of neural architecture search (NAS) by reusing the weights of shared operators from previously trained child models. However, the rank correlation between the estimated accuracy and ground truth accuracy of those child models is low due to the interference among different child models caused by weight sharing. In this paper, we investigate the interference issue by sampling different child models and calculating the gradient similarity of shared operators, and observe: 1) the interference on a shared operator between two child models is positively correlated with the number of different operators; 2) the interference is smaller when the inputs and outputs of the shared operator are more similar. Inspired by these two observations, we propose two approaches to mitigate the interference: 1) MAGIC-T: rather than randomly sampling child models for optimization, we propose a gradual modification scheme by modifying one operator between adjacent optimization steps to minimize the interference on the shared operators; 2) MAGIC-A: forcing the inputs and outputs of the operator across all child models to be similar to reduce the interference. Experiments on a BERT search space verify that mitigating interference via each of our proposed methods improves the rank correlation of super-pet and combining both methods can achieve better results. Our discovered architecture outperforms RoBERTa$_{\rm base}$ by 1.1 and 0.6 points and ELECTRA$_{\rm base}$ by 1.6 and 1.1 points on the dev and test set of GLUE benchmark. Extensive results on the BERT compression, reading comprehension and ImageNet task demonstrate the effectiveness and generality of our proposed methods.
Lighting is a determining factor in photography that affects the style, expression of emotion, and even quality of images. Creating or finding satisfying lighting conditions, in reality, is laborious and time-consuming, so it is of great value to develop a technology to manipulate illumination in an image as post-processing. Although previous works have explored techniques based on the physical viewpoint for relighting images, extensive supervisions and prior knowledge are necessary to generate reasonable images, restricting the generalization ability of these works. In contrast, we take the viewpoint of image-to-image translation and implicitly merge ideas of the conventional physical viewpoint. In this paper, we present an Illumination-Aware Network (IAN) which follows the guidance from hierarchical sampling to progressively relight a scene from a single image with high efficiency. In addition, an Illumination-Aware Residual Block (IARB) is designed to approximate the physical rendering process and to extract precise descriptors of light sources for further manipulations. We also introduce a depth-guided geometry encoder for acquiring valuable geometry- and structure-related representations once the depth information is available. Experimental results show that our proposed method produces better quantitative and qualitative relighting results than previous state-of-the-art methods. The code and models are publicly available on //github.com/NK-CS-ZZL/IAN.
Spiking Neural Networks (SNNs) have gained huge attention as a potential energy-efficient alternative to conventional Artificial Neural Networks (ANNs) due to their inherent high-sparsity activation. However, most prior SNN methods use ANN-like architectures (e.g., VGG-Net or ResNet), which could provide sub-optimal performance for temporal sequence processing of binary information in SNNs. To address this, in this paper, we introduce a novel Neural Architecture Search (NAS) approach for finding better SNN architectures. Inspired by recent NAS approaches that find the optimal architecture from activation patterns at initialization, we select the architecture that can represent diverse spike activation patterns across different data samples without training. Moreover, to further leverage the temporal information among the spikes, we search for feed forward connections as well as backward connections (i.e., temporal feedback connections) between layers. Interestingly, SNASNet found by our search algorithm achieves higher performance with backward connections, demonstrating the importance of designing SNN architecture for suitably using temporal information. We conduct extensive experiments on three image recognition benchmarks where we show that SNASNet achieves state-of-the-art performance with significantly lower timesteps (5 timesteps). Code is available at Github.
Wireless Capsule Endoscopy is one of the most advanced non-invasive methods for the examination of gastrointestinal tracts. An intelligent computer-aided diagnostic system for detecting gastrointestinal abnormalities like polyp, bleeding, inflammation, etc. is highly exigent in wireless capsule endoscopy image analysis. Abnormalities greatly differ in their shape, size, color, and texture, and some appear to be visually similar to normal regions. This poses a challenge in designing a binary classifier due to intra-class variations. In this study, a hybrid convolutional neural network is proposed for abnormality detection that extracts a rich pool of meaningful features from wireless capsule endoscopy images using a variety of convolution operations. It consists of three parallel convolutional neural networks, each with a distinctive feature learning capability. The first network utilizes depthwise separable convolution, while the second employs cosine normalized convolution operation. A novel meta-feature extraction mechanism is introduced in the third network, to extract patterns from the statistical information drawn over the features generated from the first and second networks and its own previous layer. The network trio effectively handles intra-class variance and efficiently detects gastrointestinal abnormalities. The proposed hybrid convolutional neural network model is trained and tested on two widely used publicly available datasets. The test results demonstrate that the proposed model outperforms six state-of-the-art methods with 97\% and 98\% classification accuracy on KID and Kvasir-Capsule datasets respectively. Cross dataset evaluation results also demonstrate the generalization performance of the proposed model.
Transformers have dominated the field of natural language processing, and recently impacted the computer vision area. In the field of medical image analysis, Transformers have also been successfully applied to full-stack clinical applications, including image synthesis/reconstruction, registration, segmentation, detection, and diagnosis. Our paper presents both a position paper and a primer, promoting awareness and application of Transformers in the field of medical image analysis. Specifically, we first overview the core concepts of the attention mechanism built into Transformers and other basic components. Second, we give a new taxonomy of various Transformer architectures tailored for medical image applications and discuss their limitations. Within this review, we investigate key challenges revolving around the use of Transformers in different learning paradigms, improving the model efficiency, and their coupling with other techniques. We hope this review can give a comprehensive picture of Transformers to the readers in the field of medical image analysis.
The time and effort involved in hand-designing deep neural networks is immense. This has prompted the development of Neural Architecture Search (NAS) techniques to automate this design. However, NAS algorithms tend to be slow and expensive; they need to train vast numbers of candidate networks to inform the search process. This could be alleviated if we could partially predict a network's trained accuracy from its initial state. In this work, we examine the overlap of activations between datapoints in untrained networks and motivate how this can give a measure which is usefully indicative of a network's trained performance. We incorporate this measure into a simple algorithm that allows us to search for powerful networks without any training in a matter of seconds on a single GPU, and verify its effectiveness on NAS-Bench-101, NAS-Bench-201, NATS-Bench, and Network Design Spaces. Our approach can be readily combined with more expensive search methods; we examine a simple adaptation of regularised evolutionary search. Code for reproducing our experiments is available at //github.com/BayesWatch/nas-without-training.
Applying artificial intelligence techniques in medical imaging is one of the most promising areas in medicine. However, most of the recent success in this area highly relies on large amounts of carefully annotated data, whereas annotating medical images is a costly process. In this paper, we propose a novel method, called FocalMix, which, to the best of our knowledge, is the first to leverage recent advances in semi-supervised learning (SSL) for 3D medical image detection. We conducted extensive experiments on two widely used datasets for lung nodule detection, LUNA16 and NLST. Results show that our proposed SSL methods can achieve a substantial improvement of up to 17.3% over state-of-the-art supervised learning approaches with 400 unlabeled CT scans.
Deep neural network architectures have traditionally been designed and explored with human expertise in a long-lasting trial-and-error process. This process requires huge amount of time, expertise, and resources. To address this tedious problem, we propose a novel algorithm to optimally find hyperparameters of a deep network architecture automatically. We specifically focus on designing neural architectures for medical image segmentation task. Our proposed method is based on a policy gradient reinforcement learning for which the reward function is assigned a segmentation evaluation utility (i.e., dice index). We show the efficacy of the proposed method with its low computational cost in comparison with the state-of-the-art medical image segmentation networks. We also present a new architecture design, a densely connected encoder-decoder CNN, as a strong baseline architecture to apply the proposed hyperparameter search algorithm. We apply the proposed algorithm to each layer of the baseline architectures. As an application, we train the proposed system on cine cardiac MR images from Automated Cardiac Diagnosis Challenge (ACDC) MICCAI 2017. Starting from a baseline segmentation architecture, the resulting network architecture obtains the state-of-the-art results in accuracy without performing any trial-and-error based architecture design approaches or close supervision of the hyperparameters changes.
Recently, graph neural networks (GNNs) have revolutionized the field of graph representation learning through effectively learned node embeddings, and achieved state-of-the-art results in tasks such as node classification and link prediction. However, current GNN methods are inherently flat and do not learn hierarchical representations of graphs---a limitation that is especially problematic for the task of graph classification, where the goal is to predict the label associated with an entire graph. Here we propose DiffPool, a differentiable graph pooling module that can generate hierarchical representations of graphs and can be combined with various graph neural network architectures in an end-to-end fashion. DiffPool learns a differentiable soft cluster assignment for nodes at each layer of a deep GNN, mapping nodes to a set of clusters, which then form the coarsened input for the next GNN layer. Our experimental results show that combining existing GNN methods with DiffPool yields an average improvement of 5-10% accuracy on graph classification benchmarks, compared to all existing pooling approaches, achieving a new state-of-the-art on four out of five benchmark data sets.
Deep learning (DL) based semantic segmentation methods have been providing state-of-the-art performance in the last few years. More specifically, these techniques have been successfully applied to medical image classification, segmentation, and detection tasks. One deep learning technique, U-Net, has become one of the most popular for these applications. In this paper, we propose a Recurrent Convolutional Neural Network (RCNN) based on U-Net as well as a Recurrent Residual Convolutional Neural Network (RRCNN) based on U-Net models, which are named RU-Net and R2U-Net respectively. The proposed models utilize the power of U-Net, Residual Network, as well as RCNN. There are several advantages of these proposed architectures for segmentation tasks. First, a residual unit helps when training deep architecture. Second, feature accumulation with recurrent residual convolutional layers ensures better feature representation for segmentation tasks. Third, it allows us to design better U-Net architecture with same number of network parameters with better performance for medical image segmentation. The proposed models are tested on three benchmark datasets such as blood vessel segmentation in retina images, skin cancer segmentation, and lung lesion segmentation. The experimental results show superior performance on segmentation tasks compared to equivalent models including U-Net and residual U-Net (ResU-Net).
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