Push the Boundary of SAM: A Pseudo-label Correction Framework for Medical Segmentation

Segment anything model (SAM) has emerged as the leading approach for zero-shot learning in segmentation, offering the advantage of avoiding pixel-wise annotation. It is particularly appealing in medical image segmentation where annotation is laborious and expertise-demanding. However, the direct application of SAM often yields inferior results compared to conventional fully supervised segmentation networks. While using SAM generated pseudo label could also benefit the training of fully supervised segmentation, the performance is limited by the quality of pseudo labels. In this paper, we propose a novel label corruption to push the boundary of SAM-based segmentation. Our model utilizes a novel noise detection module to distinguish between noisy labels from clean labels. This enables us to correct the noisy labels using an uncertainty-based self-correction module, thereby enriching the clean training set. Finally, we retrain the network with updated labels to optimize its weights for future predictions. One key advantage of our model is its ability to train deep networks using SAM-generated pseudo labels without relying on a subset of expert-level annotations. We demonstrate the effectiveness of our proposed model on both X-ray and lung CT datasets, indicating its ability to improve segmentation accuracy and outperform baseline methods in label correction.

Efficient Uncertainty Quantification and Reduction for Over-Parameterized Neural Networks

Uncertainty quantification (UQ) is important for reliability assessment and enhancement of machine learning models. In deep learning, uncertainties arise not only from data, but also from the training procedure that often injects substantial noises and biases. These hinder the attainment of statistical guarantees and, moreover, impose computational challenges on UQ due to the need for repeated network retraining. Building upon the recent neural tangent kernel theory, we create statistically guaranteed schemes to principally \emph{quantify}, and \emph{remove}, the procedural uncertainty of over-parameterized neural networks with very low computation effort. In particular, our approach, based on what we call a procedural-noise-correcting (PNC) predictor, removes the procedural uncertainty by using only \emph{one} auxiliary network that is trained on a suitably labeled data set, instead of many retrained networks employed in deep ensembles. Moreover, by combining our PNC predictor with suitable light-computation resampling methods, we build several approaches to construct asymptotically exact-coverage confidence intervals using as low as four trained networks without additional overheads.

Evaluating Aleatoric Uncertainty via Conditional Generative Models

Aleatoric uncertainty quantification seeks for distributional knowledge of random responses, which is important for reliability analysis and robustness improvement in machine learning applications. Previous research on aleatoric uncertainty estimation mainly targets closed-formed conditional densities or variances, which requires strong restrictions on the data distribution or dimensionality. To overcome these restrictions, we study conditional generative models for aleatoric uncertainty estimation. We introduce two metrics to measure the discrepancy between two conditional distributions that suit these models. Both metrics can be easily and unbiasedly computed via Monte Carlo simulation of the conditional generative models, thus facilitating their evaluation and training. We demonstrate numerically how our metrics provide correct measurements of conditional distributional discrepancies and can be used to train conditional models competitive against existing benchmarks.

Cardiac Adipose Tissue Segmentation via Image-Level Annotations

Automatically identifying the structural substrates underlying cardiac abnormalities can potentially provide real-time guidance for interventional procedures. With the knowledge of cardiac tissue substrates, the treatment of complex arrhythmias such as atrial fibrillation and ventricular tachycardia can be further optimized by detecting arrhythmia substrates to target for treatment (i.e., adipose) and identifying critical structures to avoid. Optical coherence tomography (OCT) is a real-time imaging modality that aids in addressing this need. Existing approaches for cardiac image analysis mainly rely on fully supervised learning techniques, which suffer from the drawback of workload on labor-intensive annotation process of pixel-wise labeling. To lessen the need for pixel-wise labeling, we develop a two-stage deep learning framework for cardiac adipose tissue segmentation using image-level annotations on OCT images of human cardiac substrates. In particular, we integrate class activation mapping with superpixel segmentation to solve the sparse tissue seed challenge raised in cardiac tissue segmentation. Our study bridges the gap between the demand on automatic tissue analysis and the lack of high-quality pixel-wise annotations. To the best of our knowledge, this is the first study that attempts to address cardiac tissue segmentation on OCT images via weakly supervised learning techniques. Within an in-vitro human cardiac OCT dataset, we demonstrate that our weakly supervised approach on image-level annotations achieves comparable performance as fully supervised methods trained on pixel-wise annotations.

Generalized Bayesian Upper Confidence Bound with Approximate Inference for Bandit Problems

Bayesian bandit algorithms with approximate inference have been widely used in practice with superior performance. Yet, few studies regarding the fundamental understanding of their performances are available. In this paper, we propose a Bayesian bandit algorithm, which we call Generalized Bayesian Upper Confidence Bound (GBUCB), for bandit problems in the presence of approximate inference. Our theoretical analysis demonstrates that in Bernoulli multi-armed bandit, GBUCB can achieve $O(\sqrt{T}(\log T)^c)$ frequentist regret if the inference error measured by symmetrized Kullback-Leibler divergence is controllable. This analysis relies on a novel sensitivity analysis for quantile shifts with respect to inference errors. To our best knowledge, our work provides the first theoretical regret bound that is better than $o(T)$ in the setting of approximate inference. Our experimental evaluations on multiple approximate inference settings corroborate our theory, showing that our GBUCB is consistently superior to BUCB and Thompson sampling.

Quantifying Epistemic Uncertainty in Deep Learning

Uncertainty quantification is at the core of the reliability and robustness of machine learning. It is well-known that uncertainty consists of two different types, often referred to as aleatoric and epistemic uncertainties. In this paper, we provide a systematic study on the epistemic uncertainty in deep supervised learning. We rigorously distinguish different sources of epistemic uncertainty, including in particular procedural variability (from the training procedure) and data variability (from the training data). We use our framework to explain how deep ensemble enhances prediction by reducing procedural variability. We also propose two approaches to estimate epistemic uncertainty for a well-trained neural network in practice. One uses influence function derived from the theory of neural tangent kernel that bypasses the convexity assumption violated by modern neural networks. Another uses batching that bypasses the time-consuming Gram matrix inversion in the influence function calculation, while expending minimal re-training effort. We discuss how both approaches overcome some difficulties in applying classical statistical methods to the inference on deep learning.

Learning Prediction Intervals for Regression: Generalization and Calibration

We study the generation of prediction intervals in regression for uncertainty quantification. This task can be formalized as an empirical constrained optimization problem that minimizes the average interval width while maintaining the coverage accuracy across data. We strengthen the existing literature by studying two aspects of this empirical optimization. First is a general learning theory to characterize the optimality-feasibility tradeoff that encompasses Lipschitz continuity and VC-subgraph classes, which are exemplified in regression trees and neural networks. Second is a calibration machinery and the corresponding statistical theory to optimally select the regularization parameter that manages this tradeoff, which bypasses the overfitting issues in previous approaches in coverage attainment. We empirically demonstrate the strengths of our interval generation and calibration algorithms in terms of testing performances compared to existing benchmarks.

Co-Seg: An Image Segmentation Framework Against Label Corruption

Supervised deep learning performance is heavily tied to the availability of high-quality labels for training. Neural networks can gradually overfit corrupted labels if directly trained on noisy datasets, leading to severe performance degradation at test time. In this paper, we propose a novel deep learning framework, namely Co-Seg, to collaboratively train segmentation networks on datasets which include low-quality noisy labels. Our approach first trains two networks simultaneously to sift through all samples and obtain a subset with reliable labels. Then, an efficient yet easily-implemented label correction strategy is applied to enrich the reliable subset. Finally, using the updated dataset, we retrain the segmentation network to finalize its parameters. Experiments in two noisy labels scenarios demonstrate that our proposed model can achieve results comparable to those obtained from supervised learning trained on the noise-free labels. In addition, our framework can be easily implemented in any segmentation algorithm to increase its robustness to noisy labels.