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Register a new userLearning to Segment Anatomical Structures Accurately from One Exemplar
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Added by
Yuhang Lu
Publication date
2020
fields
Informatics Engineering
and research's language is
English
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Accurate segmentation of critical anatomical structures is at the core of medical image analysis. The main bottleneck lies in gathering the requisite expert-labeled image annotations in a scalable manner. Methods that permit to produce accurate anatomical structure segmentation without using a large amount of fully annotated training images are highly desirable. In this work, we propose a novel contribution of Contour Transformer Network (CTN), a one-shot anatomy segmentor including a naturally built-in human-in-the-loop mechanism. Segmentation is formulated by learning a contour evolution behavior process based on graph convolutional networks (GCNs). Training of our CTN model requires only one labeled image exemplar and leverages additional unlabeled data through newly introduced loss functions that measure the global shape and appearance consistency of contours. We demonstrate that our one-shot learning method significantly outperforms non-learning-based methods and performs competitively to the state-of-the-art fully supervised deep learning approaches. With minimal human-in-the-loop editing feedback, the segmentation performance can be further improved and tailored towards the observer desired outcomes. This can facilitate the clinician designed imaging-based biomarker assessments (to support personalized quantitative clinical diagnosis) and outperforms fully supervised baselines.
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Accurate segmentation of anatomical structures is vital for medical image analysis. The state-of-the-art accuracy is typically achieved by supervised learning methods, where gathering the requisite expert-labeled image annotations in a scalable manner remains a main obstacle. Therefore, annotation-efficient methods that permit to produce accurate anatomical structure segmentation are highly desirable. In this work, we present Contour Transformer Network (CTN), a one-shot anatomy segmentation method with a naturally built-in human-in-the-loop mechanism. We formulate anatomy segmentation as a contour evolution process and model the evolution behavior by graph convolutional networks (GCNs). Training the CTN model requires only one labeled image exemplar and leverages additional unlabeled data through newly introduced loss functions that measure the global shape and appearance consistency of contours. On segmentation tasks of four different anatomies, we demonstrate that our one-shot learning method significantly outperforms non-learning-based methods and performs competitively to the state-of-the-art fully supervised deep learning methods. With minimal human-in-the-loop editing feedback, the segmentation performance can be further improved to surpass the fully supervised methods.
Deep convolutional neural networks have driven substantial advancements in the automatic understanding of images. Requiring a large collection of images and their associated annotations is one of the main bottlenecks limiting the adoption of deep networks. In the task of medical image segmentation, requiring pixel-level semantic annotations performed by human experts exacerbate this difficulty. This paper proposes a new framework to train a fully convolutional segmentation network from a large set of cheap unreliable annotations and a small set of expert-level clean annotations. We propose a spatially adaptive reweighting approach to treat clean and noisy pixel-level annotations commensurately in the loss function. We deploy a meta-learning approach to assign higher importance to pixels whose loss gradient direction is closer to those of clean data. Our experiments on training the network using segmentation ground truth corrupted with different levels of annotation noise show how spatial reweighting improves the robustness of deep networks to noisy annotations.
Appearance-based detectors achieve remarkable performance on common scenes, but tend to fail for scenarios lack of training data. Geometric motion segmentation algorithms, however, generalize to novel scenes, but have yet to achieve comparable performance to appearance-based ones, due to noisy motion estimations and degenerate motion configurations. To combine the best of both worlds, we propose a modular network, whose architecture is motivated by a geometric analysis of what independent object motions can be recovered from an egomotion field. It takes two consecutive frames as input and predicts segmentation masks for the background and multiple rigidly moving objects, which are then parameterized by 3D rigid transformations. Our method achieves state-of-the-art performance for rigid motion segmentation on KITTI and Sintel. The inferred rigid motions lead to a significant improvement for depth and scene flow estimation. At the time of submission, our method ranked 1st on KITTI scene flow leaderboard, out-performing the best published method (scene flow error: 4.89% vs 6.31%).
Real-world visual recognition requires handling the extreme sample imbalance in large-scale long-tailed data. We propose a divide&conquer strategy for the challenging LVIS task: divide the whole data into balanced parts and then apply incremental learning to conquer each one. This derives a novel learning paradigm: class-incremental few-shot learning, which is especially effective for the challenge evolving over time: 1) the class imbalance among the old-class knowledge review and 2) the few-shot data in new-class learning. We call our approach Learning to Segment the Tail (LST). In particular, we design an instance-level balanced replay scheme, which is a memory-efficient approximation to balance the instance-level samples from the old-class images. We also propose to use a meta-module for new-class learning, where the module parameters are shared across incremental phases, gaining the learning-to-learn knowledge incrementally, from the data-rich head to the data-poor tail. We empirically show that: at the expense of a little sacrifice of head-class forgetting, we can gain a significant 8.3% AP improvement for the tail classes with less than 10 instances, achieving an overall 2.0% AP boost for the whole 1,230 classes.
Nodule segmentation from breast ultrasound images is challenging yet essential for the diagnosis. Weakly-supervised segmentation (WSS) can help reduce time-consuming and cumbersome manual annotation. Unlike existing weakly-supervised approaches, in this study, we propose a novel and general WSS framework called Flip Learning, which only needs the box annotation. Specifically, the target in the label box will be erased gradually to flip the classification tag, and the erased region will be considered as the segmentation result finally. Our contribution is three-fold. First, our proposed approach erases on superpixel level using a Multi-agent Reinforcement Learning framework to exploit the prior boundary knowledge and accelerate the learning process. Second, we design two rewards: classification score and intensity distribution reward, to avoid under- and over-segmentation, respectively. Third, we adopt a coarse-to-fine learning strategy to reduce the residual errors and improve the segmentation performance. Extensively validated on a large dataset, our proposed approach achieves competitive performance and shows great potential to narrow the gap between fully-supervised and weakly-supervised learning.
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