Semi-supervised learning is a powerful technique for leveraging unlabeled data to improve machine learning models, but it can be affected by the presence of ``informative'' labels, which occur when some classes are more likely to be labeled than others. In the missing data literature, such labels are called missing not at random. In this paper, we propose a novel approach to address this issue by estimating the missing-data mechanism and using inverse propensity weighting to debias any SSL algorithm, including those using data augmentation. We also propose a likelihood ratio test to assess whether or not labels are indeed informative. Finally, we demonstrate the performance of the proposed methods on different datasets, in particular on two medical datasets for which we design pseudo-realistic missing data scenarios.
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Making causal inferences from observational studies can be challenging when confounders are missing not at random. In such cases, identifying causal effects is often not guaranteed. Motivated by a real example, we consider a treatment-independent missingness assumption under which we establish the identification of causal effects when confounders are missing not at random. We propose a weighted estimating equation (WEE) approach for estimating model parameters and introduce three estimators for the average causal effect, based on regression, propensity score weighting, and doubly robust estimation. We evaluate the performance of these estimators through simulations, and provide a real data analysis to illustrate our proposed method.
Recent advancements in self-supervised learning have demonstrated that effective visual representations can be learned from unlabeled images. This has led to increased interest in applying self-supervised learning to the medical domain, where unlabeled images are abundant and labeled images are difficult to obtain. However, most self-supervised learning approaches are modeled as image level discriminative or generative proxy tasks, which may not capture the finer level representations necessary for dense prediction tasks like multi-organ segmentation. In this paper, we propose a novel contrastive learning framework that integrates Localized Region Contrast (LRC) to enhance existing self-supervised pre-training methods for medical image segmentation. Our approach involves identifying Super-pixels by Felzenszwalb's algorithm and performing local contrastive learning using a novel contrastive sampling loss. Through extensive experiments on three multi-organ segmentation datasets, we demonstrate that integrating LRC to an existing self-supervised method in a limited annotation setting significantly improves segmentation performance. Moreover, we show that LRC can also be applied to fully-supervised pre-training methods to further boost performance.
Medical data often exhibits long-tail distributions with heavy class imbalance, which naturally leads to difficulty in classifying the minority classes (i.e., boundary regions or rare objects). Recent work has significantly improved semi-supervised medical image segmentation in long-tailed scenarios by equipping them with unsupervised contrastive criteria. However, it remains unclear how well they will perform in the labeled portion of data where class distribution is also highly imbalanced. In this work, we present ACTION++, an improved contrastive learning framework with adaptive anatomical contrast for semi-supervised medical segmentation. Specifically, we propose an adaptive supervised contrastive loss, where we first compute the optimal locations of class centers uniformly distributed on the embedding space (i.e., off-line), and then perform online contrastive matching training by encouraging different class features to adaptively match these distinct and uniformly distributed class centers. Moreover, we argue that blindly adopting a constant temperature $\tau$ in the contrastive loss on long-tailed medical data is not optimal, and propose to use a dynamic $\tau$ via a simple cosine schedule to yield better separation between majority and minority classes. Empirically, we evaluate ACTION++ on ACDC and LA benchmarks and show that it achieves state-of-the-art across two semi-supervised settings. Theoretically, we analyze the performance of adaptive anatomical contrast and confirm its superiority in label efficiency.
Randomized controlled trials are commonly regarded as the gold standard for causal inference and play a pivotal role in modern evidence-based medicine. However, the sample sizes they use are often too limited to draw significant causal conclusions for subgroups that are less prevalent in the population. In contrast, observational data are becoming increasingly accessible in large volumes but can be subject to bias as a result of hidden confounding. Given these complementary features, we propose a power likelihood approach to augmenting RCTs with observational data for robust estimation of heterogeneous treatment effects. We provide a data-adaptive procedure for maximizing the Expected Log Predictive Density (ELPD) to select the influence factor that best regulates the information from the observational data. We conduct a simulation study to illustrate the efficacy of our method and its favourable features compared to existing approaches. Lastly, we apply the proposed method to data from Tennessee's Student Teacher Achievement Ratio (STAR) Study to demonstrate its usefulness and practicality in real-world data analysis.
Reliable application of machine learning-based decision systems in the wild is one of the major challenges currently investigated by the field. A large portion of established approaches aims to detect erroneous predictions by means of assigning confidence scores. This confidence may be obtained by either quantifying the model's predictive uncertainty, learning explicit scoring functions, or assessing whether the input is in line with the training distribution. Curiously, while these approaches all state to address the same eventual goal of detecting failures of a classifier upon real-life application, they currently constitute largely separated research fields with individual evaluation protocols, which either exclude a substantial part of relevant methods or ignore large parts of relevant failure sources. In this work, we systematically reveal current pitfalls caused by these inconsistencies and derive requirements for a holistic and realistic evaluation of failure detection. To demonstrate the relevance of this unified perspective, we present a large-scale empirical study for the first time enabling benchmarking confidence scoring functions w.r.t all relevant methods and failure sources. The revelation of a simple softmax response baseline as the overall best performing method underlines the drastic shortcomings of current evaluation in the abundance of publicized research on confidence scoring. Code and trained models are at //github.com/IML-DKFZ/fd-shifts.
Learning image classification and image generation using the same set of network parameters is a challenging problem. Recent advanced approaches perform well in one task often exhibit poor performance in the other. This work introduces an energy-based classifier and generator, namely EGC, which can achieve superior performance in both tasks using a single neural network. Unlike a conventional classifier that outputs a label given an image (i.e., a conditional distribution $p(y|\mathbf{x})$), the forward pass in EGC is a classifier that outputs a joint distribution $p(\mathbf{x},y)$, enabling an image generator in its backward pass by marginalizing out the label $y$. This is done by estimating the energy and classification probability given a noisy image in the forward pass, while denoising it using the score function estimated in the backward pass. EGC achieves competitive generation results compared with state-of-the-art approaches on ImageNet-1k, CelebA-HQ and LSUN Church, while achieving superior classification accuracy and robustness against adversarial attacks on CIFAR-10. This work represents the first successful attempt to simultaneously excel in both tasks using a single set of network parameters. We believe that EGC bridges the gap between discriminative and generative learning.
We propose a novel class incremental learning approach by incorporating a feature augmentation technique motivated by adversarial attacks. We employ a classifier learned in the past to complement training examples rather than simply play a role as a teacher for knowledge distillation towards subsequent models. The proposed approach has a unique perspective to utilize the previous knowledge in class incremental learning since it augments features of arbitrary target classes using examples in other classes via adversarial attacks on a previously learned classifier. By allowing the cross-class feature augmentations, each class in the old tasks conveniently populates samples in the feature space, which alleviates the collapse of the decision boundaries caused by sample deficiency for the previous tasks, especially when the number of stored exemplars is small. This idea can be easily incorporated into existing class incremental learning algorithms without any architecture modification. Extensive experiments on the standard benchmarks show that our method consistently outperforms existing class incremental learning methods by significant margins in various scenarios, especially under an environment with an extremely limited memory budget.
Data augmentation is essential when applying Machine Learning in small-data regimes. It generates new samples following the observed data distribution while increasing their diversity and variability to help researchers and practitioners improve their models' robustness and, thus, deploy them in the real world. Nevertheless, its usage in tabular data still needs to be improved, as prior knowledge about the underlying data mechanism is seldom considered, limiting the fidelity and diversity of the generated data. Causal data augmentation strategies have been pointed out as a solution to handle these challenges by relying on conditional independence encoded in a causal graph. In this context, this paper experimentally analyzed the ADMG causal augmentation method considering different settings to support researchers and practitioners in understanding under which conditions prior knowledge helps generate new data points and, consequently, enhances the robustness of their models. The results highlighted that the studied method (a) is independent of the underlying model mechanism, (b) requires a minimal number of observations that may be challenging in a small-data regime to improve an ML model's accuracy, (c) propagates outliers to the augmented set degrading the performance of the model, and (d) is sensitive to its hyperparameter's value.
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 images in the semi-supervised setting with limited annotations, by leveraging domain-specific and problem-specific cues. Specifically, we propose (1) novel contrasting strategies that leverage structural similarity across volumetric medical images (domain-specific cue) and (2) a local version of the contrastive loss to learn distinctive representations of local regions that are useful for per-pixel segmentation (problem-specific cue). We carry out an extensive evaluation on three Magnetic Resonance Imaging (MRI) datasets. In the limited annotation setting, the proposed method yields substantial improvements compared to other self-supervision and semi-supervised learning techniques. When combined with a simple data augmentation technique, the proposed method reaches within 8% of benchmark performance using only two labeled MRI volumes for training, corresponding to only 4% (for ACDC) of the training data used to train the benchmark.
Recently, ensemble has been applied to deep metric learning to yield state-of-the-art results. Deep metric learning aims to learn deep neural networks for feature embeddings, distances of which satisfy given constraint. In deep metric learning, ensemble takes average of distances learned by multiple learners. As one important aspect of ensemble, the learners should be diverse in their feature embeddings. To this end, we propose an attention-based ensemble, which uses multiple attention masks, so that each learner can attend to different parts of the object. We also propose a divergence loss, which encourages diversity among the learners. The proposed method is applied to the standard benchmarks of deep metric learning and experimental results show that it outperforms the state-of-the-art methods by a significant margin on image retrieval tasks.
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