Recent studies have demonstrated the superior performance of introducing ``scan-wise" contrast labels into contrastive learning for multi-organ segmentation on multi-phase computed tomography (CT). However, such scan-wise labels are limited: (1) a coarse classification, which could not capture the fine-grained ``organ-wise" contrast variations across all organs; (2) the label (i.e., contrast phase) is typically manually provided, which is error-prone and may introduce manual biases of defining phases. In this paper, we propose a novel data-driven contrastive loss function that adapts the similar/dissimilar contrast relationship between samples in each minibatch at organ-level. Specifically, as variable levels of contrast exist between organs, we hypothesis that the contrast differences in the organ-level can bring additional context for defining representations in the latent space. An organ-wise contrast correlation matrix is computed with mean organ intensities under one-hot attention maps. The goal of adapting the organ-driven correlation matrix is to model variable levels of feature separability at different phases. We evaluate our proposed approach on multi-organ segmentation with both non-contrast CT (NCCT) datasets and the MICCAI 2015 BTCV Challenge contrast-enhance CT (CECT) datasets. Compared to the state-of-the-art approaches, our proposed contrastive loss yields a substantial and significant improvement of 1.41% (from 0.923 to 0.936, p-value$<$0.01) and 2.02% (from 0.891 to 0.910, p-value$<$0.01) on mean Dice scores across all organs with respect to NCCT and CECT cohorts. We further assess the trained model performance with the MICCAI 2021 FLARE Challenge CECT datasets and achieve a substantial improvement of mean Dice score from 0.927 to 0.934 (p-value$<$0.01). The code is available at: https://github.com/MASILab/DCC_CL
Many recent approaches in contrastive learning have worked to close the gap between pretraining on iconic images like ImageNet and pretraining on complex scenes like COCO. This gap exists largely because commonly used random crop augmentations obtain semantically inconsistent content in crowded scene images of diverse objects. Previous works use preprocessing pipelines to localize salient objects for improved cropping, but an end-to-end solution is still elusive. In this work, we propose a framework which accomplishes this goal via joint learning of representations and segmentation. We leverag…
GS-EMA: Integrating Gradient Surgery Exponential Moving Average with Boundary-Aware Contrastive Learning for Enhanced Domain Generalization in Aneurysm Segmentation
University of Leeds（利兹大学）；University of Manchester（曼彻斯特大学）
Samsung SDS Research America（三星SDS美国研究院）；UC Berkeley（加州大学伯克利分校）
3D deep learning is a growing field of interest due to the vast amount of information stored in 3D formats. Triangular meshes are an efficient representation for irregular, non-uniform 3D objects. However, meshes are often challenging to annotate due to their high geometrical complexity. Specifically, creating segmentation masks for meshes is tedious and time-consuming. Therefore, it is desirable to train segmentation networks with limited-labeled data. Self-supervised learning (SSL), a form of unsupervised representation learning, is a growing alternative to fully-supervised learning which ca…
Mohamed bin Zayed University of Artificial Intelligence（穆罕默德·本·扎耶德人工智能大学）
Contrastive learning has proven useful in many applications where access to labelled data is limited. The lack of annotated data is particularly problematic in medical image segmentation as it is difficult to have clinical experts manually annotate large volumes of data such as cardiac structures in ultrasound images of the heart. In this paper, We propose a self supervised contrastive learning method to segment the left ventricle from echocardiography when limited annotated images exist. Furthermore, we study the effect of contrastive pretraining on two well-known segmentation networks, UNet …
PRCL: Probabilistic Representation Contrastive Learning for Semi-Supervised Semantic Segmentation
School of Computer Science and Engineering, Northeastern University（东北大学计算机科学与工程学院）；Intelligent Game and Decision Laboratory（智能游戏与决策实验室）；Alibaba DAMO Academy, Alibaba Group（阿里巴巴集团达摩院）；Zhejiang University（浙江大学）
Medical image segmentation, or computing voxelwise semantic masks, is a fundamental yet challenging task to compute a voxel-level semantic mask. To increase the ability of encoder-decoder neural networks to perform this task across large clinical cohorts, contrastive learning provides an opportunity to stabilize model initialization and enhance encoders without labels. However, multiple target objects (with different semantic meanings) may exist in a single image, which poses a problem for adapting traditional contrastive learning methods from prevalent 'image-level classification' to 'pixel-l…
Learning discriminative representations of unlabelled data is a challenging task. Contrastive self-supervised learning provides a framework to learn meaningful representations using learned notions of similarity measures from simple pretext tasks. In this work, we propose a simple and efficient framework for self-supervised image segmentation using contrastive learning on image patches, without using explicit pretext tasks or any further labeled fine-tuning. A fully convolutional neural network (FCNN) is trained in a self-supervised manner to discern features in the input images and obtain con…
Collecting labeled data for the task of semantic segmentation is expensive and time-consuming, as it requires dense pixel-level annotations. While recent Convolutional Neural Network (CNN) based semantic segmentation approaches have achieved impressive results by using large amounts of labeled training data, their performance drops significantly as the amount of labeled data decreases. This happens because deep CNNs trained with the de facto cross-entropy loss can easily overfit to small amounts of labeled data. To address this issue, we propose a simple and effective contrastive learning-base…
F Hoffmann-La Roche AG（罗氏公司）；Genentech Inc（基因泰克公司）；ETH Zurich（苏黎世联邦理工学院）；Uppsala University（乌普萨拉大学）
Accurate segmentation of retinal fluids in 3D Optical Coherence Tomography images is key for diagnosis and personalized treatment of eye diseases. While deep learning has been successful at this task, trained supervised models often fail for images that do not resemble labeled examples, e.g. for images acquired using different devices. We hereby propose a novel semi-supervised learning framework for segmentation of volumetric images from new unlabeled domains. We jointly use supervised and contrastive learning, also introducing a contrastive pairing scheme that leverages similarity between nea…
Automatic segmentation of brain MR images into white matter (WM), gray matter (GM), and cerebrospinal fluid (CSF) is critical for tissue volumetric analysis and cortical surface reconstruction. Due to dramatic structural and appearance changes associated with developmental and aging processes, existing brain tissue segmentation methods are only viable for specific age groups. Consequently, methods developed for one age group may fail for another. In this paper, we make the first attempt to segment brain tissues across the entire human lifespan (0-100 years of age) using a unified deep learning…
University of Pittsburgh（匹兹堡大学）；University of Notre Dame（圣母大学）
Supervised deep learning needs a large amount of labeled data to achieve high performance. However, in medical imaging analysis, each site may only have a limited amount of data and labels, which makes learning ineffective. Federated learning (FL) can help in this regard by learning a shared model while keeping training data local for privacy. Traditional FL requires fully-labeled data for training, which is inconvenient or sometimes infeasible to obtain due to high labeling cost and the requirement of expertise. Contrastive learning (CL), as a self-supervised learning approach, can effectivel…
School of Biomedical Engineering, Health Center, Shenzhen University（深圳大学生物医学工程学院、健康中心）；Medical UltraSound Image Computing (MUSIC) Lab, Shenzhen University（深圳大学医学超声图像计算（MUSIC）实验室）；School of Biological Sciences and Medical Engineering, Southeast University（东南大学生物科学与医学工程学院）
Ultrasound (US) image segmentation embraced its significant improvement in deep learning era. However, the lack of sharp boundaries in US images still remains an inherent challenge for segmentation. Previous methods often resort to global context, multi-scale cues or auxiliary guidance to estimate the boundaries. It is hard for these methods to approach pixel-level learning for fine-grained boundary generating. In this paper, we propose a novel and effective framework to improve boundary estimation in US images. Our work has three highlights. First, we propose to formulate the boundary estimat…
Computer Vision Laboratory, ETH Zurich（苏黎世联邦理工学院计算机视觉实验室）
Supervised deep learning-based methods yield accurate results for medical image segmentation. However, they require large labeled datasets for this, and obtaining them is a laborious task that requires clinical expertise. Semi/self-supervised learning-based approaches address this limitation by exploiting unlabeled data along with limited annotated data. Recent self-supervised learning methods use contrastive loss to learn good global level representations from unlabeled images and achieve high performance in classification tasks on popular natural image datasets like ImageNet. In pixel-level …
Yale University（耶鲁大学）；The University of Texas at Austin（德克萨斯大学奥斯汀分校）
Contrastive learning (CL) aims to learn useful representation without relying on expert annotations in the context of medical image segmentation. Existing approaches mainly contrast a single positive vector (i.e., an augmentation of the same image) against a set of negatives within the entire remainder of the batch by simply mapping all input features into the same constant vector. Despite the impressive empirical performance, those methods have the following shortcomings: (1) it remains a formidable challenge to prevent the collapsing problems to trivial solutions; and (2) we argue that not a…
Contrastive learning has shown great promise over annotation scarcity problems in the context of medical image segmentation. Existing approaches typically assume a balanced class distribution for both labeled and unlabeled medical images. However, medical image data in reality is commonly imbalanced (i.e., multi-class label imbalance), which naturally yields blurry contours and usually incorrectly labels rare objects. Moreover, it remains unclear whether all negative samples are equally negative. In this work, we present ACTION, an Anatomical-aware ConTrastive dIstillatiON framework, for semi-…
Yale University（耶鲁大学）；The University of Texas at Austin（德克萨斯大学奥斯汀分校）
Automated segmentation in medical image analysis is a challenging task that requires a large amount of manually labeled data. However, most existing learning-based approaches usually suffer from limited manually annotated medical data, which poses a major practical problem for accurate and robust medical image segmentation. In addition, most existing semi-supervised approaches are usually not robust compared with the supervised counterparts, and also lack explicit modeling of geometric structure and semantic information, both of which limit the segmentation accuracy. In this work, we present S…
University of Pittsburgh（匹兹堡大学）；University of Notre Dame（圣母大学）；George Mason University（乔治梅森大学）
Supervised deep learning needs a large amount of labeled data to achieve high performance. However, in medical imaging analysis, each site may only have a limited amount of data and labels, which makes learning ineffective. Federated learning (FL) can learn a shared model from decentralized data. But traditional FL requires fully-labeled data for training, which is very expensive to obtain. Self-supervised contrastive learning (CL) can learn from unlabeled data for pre-training, followed by fine-tuning with limited annotations. However, when adopting CL in FL, the limited data diversity on eac…
Medical image annotation typically requires expert knowledge and hence incurs time-consuming and expensive data annotation costs. To alleviate this burden, we propose a novel learning scenario, Exemplar Learning (EL), to explore automated learning processes for medical image segmentation with a single annotated image example. This innovative learning task is particularly suitable for medical image segmentation, where all categories of organs can be presented in one single image and annotated all at once. To address this challenging EL task, we propose an Exemplar Learning-based Synthesis Net (…
Xiamen University（厦门大学）；The Hong Kong University of Science and Technology（香港科技大学）；Peking University（北京大学）；The Hong Kong Polytechnic University（香港理工大学）；Manteia Technologies Co.,Ltd（Manteia科技有限公司）
Automatic delineation of organ-at-risk (OAR) and gross-tumor-volume (GTV) is of great significance for radiotherapy planning. However, it is a challenging task to learn powerful representations for accurate delineation under limited pixel (voxel)-wise annotations. Contrastive learning at pixel-level can alleviate the dependency on annotations by learning dense representations from unlabeled data. Recent studies in this direction design various contrastive losses on the feature maps, to yield discriminative features for each pixel in the map. However, pixels in the same map inevitably share sem…
Computer Vision Lab, ETH Zurich（计算机视觉实验室，苏黎世联邦理工学院）
A key requirement for the success of supervised deep learning is a large labeled dataset - a condition that is difficult to meet in medical image analysis. Self-supervised learning (SSL) can help in this regard by providing a strategy to pre-train a neural network with unlabeled data, followed by fine-tuning for a downstream task with limited annotations. Contrastive learning, a particular variant of SSL, is a powerful technique for learning image-level representations. In this work, we propose strategies for extending the contrastive learning framework for segmentation of volumetric medical i…
Bar-Ilan University（巴伊兰大学）；Facebook AI Research（脸书人工智能研究院）
We propose a self-supervised representation learning model for the task of unsupervised phoneme boundary detection. The model is a convolutional neural network that operates directly on the raw waveform. It is optimized to identify spectral changes in the signal using the Noise-Contrastive Estimation principle. At test time, a peak detection algorithm is applied over the model outputs to produce the final boundaries. As such, the proposed model is trained in a fully unsupervised manner with no manual annotations in the form of target boundaries nor phonetic transcriptions. We compare the propo…
Reliable detection of anomalies is crucial when deploying machine learning models in practice, but remains challenging due to the lack of labeled data. To tackle this challenge, contrastive learning approaches are becoming increasingly popular, given the impressive results they have achieved in self-supervised representation learning settings. However, while most existing contrastive anomaly detection and segmentation approaches have been applied to images, none of them can use the contrastive losses directly for both anomaly detection and segmentation. In this paper, we close this gap by maki…
Unsupervised domain adaptation (UDA) aims to transfer knowledge learned from a labeled source domain to an unlabeled target domain. Contrastive learning (CL) in the context of UDA can help to better separate classes in feature space. However, in image segmentation, the large memory footprint due to the computation of the pixel-wise contrastive loss makes it prohibitive to use. Furthermore, labeled target data is not easily available in medical imaging, and obtaining new samples is not economical. As a result, in this work, we tackle a more challenging UDA task when there are only a few (fewsho…
Jilin University（吉林大学）；Baidu Research（百度研究院）；National Engineering Laboratory for Deep Learning Technology and Application（深度学习技术及应用国家工程实验室）
Current semi-supervised semantic segmentation methods mainly focus on designing pixel-level consistency and contrastive regularization. However, pixel-level regularization is sensitive to noise from pixels with incorrect predictions, and pixel-level contrastive regularization has memory and computational cost with O(pixel_num^2). To address the issues, we propose a novel region-level contrastive and consistency learning framework (RC^2L) for semi-supervised semantic segmentation. Specifically, we first propose a Region Mask Contrastive (RMC) loss and a Region Feature Contrastive (RFC) loss to …
Carleton University（卡尔顿大学）；Canada CIFAR AI Chair（加拿大CIFAR人工智能讲席）
Medical image segmentation methods typically rely on numerous dense annotated images for model training, which are notoriously expensive and time-consuming to collect. To alleviate this burden, weakly supervised techniques have been exploited to train segmentation models with less expensive annotations. In this paper, we propose a novel point-supervised contrastive variance method (PSCV) for medical image semantic segmentation, which only requires one pixel-point from each organ category to be annotated. The proposed method trains the base segmentation network by using a novel contrastive vari…
Semantic segmentation in autonomous driving predominantly focuses on learning from large-scale data with a closed set of known classes without considering unknown objects. Motivated by safety reasons, we address the video class agnostic segmentation task, which considers unknown objects outside the closed set of known classes in our training data. We propose a novel auxiliary contrastive loss to learn the segmentation of known classes and unknown objects. Unlike previous work in contrastive learning that samples the anchor, positive and negative examples on an image level, our contrastive lear…
To overcome the data-hungry challenge, we have proposed a semi-supervised contrastive learning framework for the task of class-imbalanced semantic segmentation. First and foremost, to make the model operate in a semi-supervised manner, we proposed the confidence-level-based contrastive learning to achieve instance discrimination in an explicit manner, and make the low-confidence low-quality features align with the high-confidence counterparts. Moreover, to tackle the problem of class imbalance in crack segmentation and road components extraction, we proposed the data imbalance loss to replace …
University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）；X The Moonshot Factory（X 登月工厂）
We present a novel semi-supervised semantic segmentation method which jointly achieves two desiderata of segmentation model regularities: the label-space consistency property between image augmentations and the feature-space contrastive property among different pixels. We leverage the pixel-level L2 loss and the pixel contrastive loss for the two purposes respectively. To address the computational efficiency issue and the false negative noise issue involved in the pixel contrastive loss, we further introduce and investigate several negative sampling techniques. Extensive experiments demonstrat…
Semantic segmentation models struggle to generalize in the presence of domain shift. In this paper, we introduce contrastive learning for feature alignment in cross-domain adaptation. We assemble both in-domain contrastive pairs and cross-domain contrastive pairs to learn discriminative features that align across domains. Based on the resulting well-aligned feature representations we introduce a label expansion approach that is able to discover samples from hard classes during the adaptation process to further boost performance. The proposed approach consistently outperforms state-of-the-art m…
University of Notre Dame（圣母大学）；University of Pittsburgh（匹兹堡大学）；Guangdong Provincial People’s Hospital（广东省人民医院）
The success of deep learning heavily depends on the availability of large labeled training sets. However, it is hard to get large labeled datasets in medical image domain because of the strict privacy concern and costly labeling efforts. Contrastive learning, an unsupervised learning technique, has been proved powerful in learning image-level representations from unlabeled data. The learned encoder can then be transferred or fine-tuned to improve the performance of downstream tasks with limited labels. A critical step in contrastive learning is the generation of contrastive data pairs, which i…
Mercedes Benz Research and Development India（梅赛德斯-奔驰印度研发中心）
In this work, we propose CLUDA, a simple, yet novel method for performing unsupervised domain adaptation (UDA) for semantic segmentation by incorporating contrastive losses into a student-teacher learning paradigm, that makes use of pseudo-labels generated from the target domain by the teacher network. More specifically, we extract a multi-level fused-feature map from the encoder, and apply contrastive loss across different classes and different domains, via source-target mixing of images. We consistently improve performance on various feature encoder architectures and for different domain ada…
Deep networks trained on the source domain show degraded performance when tested on unseen target domain data. To enhance the model's generalization ability, most existing domain generalization methods learn domain invariant features by suppressing domain sensitive features. Different from them, we propose a Domain Projection and Contrastive Learning (DPCL) approach for generalized semantic segmentation, which includes two modules: Self-supervised Source Domain Projection (SSDP) and Multi-level Contrastive Learning (MLCL). SSDP aims to reduce domain gap by projecting data to the source domain,…
We introduce Patch Aligned Contrastive Learning (PACL), a modified compatibility function for CLIP's contrastive loss, intending to train an alignment between the patch tokens of the vision encoder and the CLS token of the text encoder. With such an alignment, a model can identify regions of an image corresponding to a given text input, and therefore transfer seamlessly to the task of open vocabulary semantic segmentation without requiring any segmentation annotations during training. Using pre-trained CLIP encoders with PACL, we are able to set the state-of-the-art on the task of open vocabul…
Prototype Contrastive Consistency Learning for Semi-Supervised Medical Image Segmentation
Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences（中国科学院深圳先进技术研究院）；Computer Vision Institute, College of Computer Science and Software Engineering, Shenzhen University（深圳大学计算机与软件学院计算机视觉研究所）；Baoan Central Hospital of Shenzhen（深圳市宝安中心医院）
Universidad de Zaragoza（萨拉戈萨大学）；Magic Leap（Magic Leap公司）；Bitbrain（Bitbrain公司）
This work presents a novel approach for semi-supervised semantic segmentation. The key element of this approach is our contrastive learning module that enforces the segmentation network to yield similar pixel-level feature representations for same-class samples across the whole dataset. To achieve this, we maintain a memory bank continuously updated with relevant and high-quality feature vectors from labeled data. In an end-to-end training, the features from both labeled and unlabeled data are optimized to be similar to same-class samples from the memory bank. Our approach outperforms the curr…
Deep learning has demonstrated significant improvements in medical image segmentation using a sufficiently large amount of training data with manual labels. Acquiring well-representative labels requires expert knowledge and exhaustive labors. In this paper, we aim to boost the performance of semi-supervised learning for medical image segmentation with limited labels using a self-ensembling contrastive learning technique. To this end, we propose to train an encoder-decoder network at image-level with small amounts of labeled images, and more importantly, we learn latent representations directly…
Stony Brook University（石溪大学）；Jadavpur University（贾达普大学）；University of Toronto（多伦多大学）；Kyungpook National University（庆北国立大学）
Due to the scarcity of labeled data, Contrastive Self-Supervised Learning (SSL) frameworks have lately shown great potential in several medical image analysis tasks. However, the existing contrastive mechanisms are sub-optimal for dense pixel-level segmentation tasks due to their inability to mine local features. To this end, we extend the concept of metric learning to the segmentation task, using a dense (dis)similarity learning for pre-training a deep encoder network, and employing a semi-supervised paradigm to fine-tune for the downstream task. Specifically, we propose a simple convolutiona…
The University of Sydney（悉尼大学）；JD Explore Academy（京东探索研究院）
Point cloud segmentation is fundamental in understanding 3D environments. However, current 3D point cloud segmentation methods usually perform poorly on scene boundaries, which degenerates the overall segmentation performance. In this paper, we focus on the segmentation of scene boundaries. Accordingly, we first explore metrics to evaluate the segmentation performance on scene boundaries. To address the unsatisfactory performance on boundaries, we then propose a novel contrastive boundary learning (CBL) framework for point cloud segmentation. Specifically, the proposed CBL enhances feature dis…
South China University of Technology（华南理工大学）；Inria（法国国家信息与自动化研究所）
Annotation of large-scale 3D data is notoriously cumbersome and costly. As an alternative, weakly-supervised learning alleviates such a need by reducing the annotation by several order of magnitudes. We propose COARSE3D, a novel architecture-agnostic contrastive learning strategy for 3D segmentation. Since contrastive learning requires rich and diverse examples as keys and anchors, we leverage a prototype memory bank capturing class-wise global dataset information efficiently into a small number of prototypes acting as keys. An entropy-driven sampling technique then allows us to select good pi…
We introduce a novel approach to unsupervised and semi-supervised domain adaptation for semantic segmentation. Unlike many earlier methods that rely on adversarial learning for feature alignment, we leverage contrastive learning to bridge the domain gap by aligning the features of structurally similar label patches across domains. As a result, the networks are easier to train and deliver better performance. Our approach consistently outperforms state-of-the-art unsupervised and semi-supervised methods on two challenging domain adaptive segmentation tasks, particularly with a small number of ta…
Loughborough University（拉夫堡大学）；Cardiff University（卡迪夫大学）；Central South University（中南大学）
Weakly supervised semantic segmentation (WSSS) has gained significant popularity since it relies only on weak labels such as image level annotations rather than pixel level annotations required by supervised semantic segmentation (SSS) methods. Despite drastically reduced annotation costs, typical feature representations learned from WSSS are only representative of some salient parts of objects and less reliable compared to SSS due to the weak guidance during training. In this paper, we propose a novel Multi-Strategy Contrastive Learning (MuSCLe) framework to obtain enhanced feature representa…
Medical image segmentation has been widely recognized as a pivot procedure for clinical diagnosis, analysis, and treatment planning. However, the laborious and expensive annotation process lags down the speed of further advances. Contrastive learning-based weight pre-training provides an alternative by leveraging unlabeled data to learn a good representation. In this paper, we investigate how contrastive learning benefits the general supervised medical segmentation tasks. To this end, patch-dragsaw contrastive regularization (PDCR) is proposed to perform patch-level tugging and repulsing with …
Fully supervised semantic segmentation learns from dense masks, which requires heavy annotation cost for closed set. In this paper, we use natural language as supervision without any pixel-level annotation for open world segmentation. We call the proposed framework as FreeSeg, where the mask is freely available from raw feature map of pretraining model. Compared with zero-shot or openset segmentation, FreeSeg doesn't require any annotated masks, and it widely predicts categories beyond class-agnostic unsupervised segmentation. Specifically, FreeSeg obtains free mask from Image-Text Similarity …
Medical image segmentation is a relevant task as it serves as the first step for several diagnosis processes, thus it is indispensable in clinical usage. Whilst major success has been reported using supervised techniques, they assume a large and well-representative labelled set. This is a strong assumption in the medical domain where annotations are expensive, time-consuming, and inherent to human bias. To address this problem, unsupervised techniques have been proposed in the literature yet it is still an open problem due to the difficulty of learning any transformation pattern. In this work,…
