Machine Learning (ML) algorithms are vital for supporting clinical decision-making in biomedical informatics. However, their predictive performance can vary across demographic groups, often due to the underrepresentation of historically marginalized populations in training datasets. The investigation reveals widespread sex- and age-related inequities in chronic disease datasets and their derived ML models. Thus, a novel analytical framework is introduced, combining systematic arbitrariness with traditional metrics like accuracy and data complexity. The analysis of data from over 25,000 individuals with chronic diseases revealed mild sex-related disparities, favoring predictive accuracy for males, and significant age-related differences, with better accuracy for younger patients. Notably, older patients showed inconsistent predictive accuracy across seven datasets, linked to higher data complexity and lower model performance. This highlights that representativeness in training data alone does not guarantee equitable outcomes, and model arbitrariness must be addressed before deploying models in clinical settings.

Heart failure remains a critical global health issue, contributing significantly to cardiovascular disease and accounting for 17.8 millions of annual deaths. The need for innovative diagnostic strategies is pressing, as classical machine learning models face challenges such as handling complex, high-dimensional data, class imbalances, poor categorical feature representations, limited performance on small datasets, and the absence of uncertainty quantification. Moreover, the interpretability of these models is often hindered by their'black box' nature, complicating clinical trust and decision-making. While quantum machine learning shows potential, existing hybrid models have yet to fully capitalize on quantum advantages. To address these gaps, we propose Kolmogorov-Arnold Classical-Quantum Dual-Channel Neural Network (KACQ-DCNN), a novel hybrid dual-channel neural network that integrates Kolmogorov-Arnold Networks (KANs) in place of traditional multilayer perceptions, enabling univariate learnable activation functions on edges. As an early adopter of KAN components, we observed that the approach significantly improved the ability of the network to approximate continuous functions with reduced complexity and improved generalizability. Our comprehensive evaluation demonstrates that the KACQ-DCNN 4-qubit 1-layered model outperforms 37 benchmark models, including 16 classical machine learning models, 12 quantum neural networks, six hybrid models, and three variants of the KACQ-DCNN architecture. It achieved an accuracy of 92.03%, along with a macro-average precision, recall, and F1 score of 92.00%, representing significant improvements across all metrics. Moreover, KACQ-DCNN achieved a ROC-AUC score of 94.77%, supported by two-tailed paired t-tests against nine top-performing models, with a significance level (α) of 5% and a Bonferroni correction applied (α

Deep learning models (DLMs) can achieve state-of-the-art performance in histopathology image segmentation and classification, but have limited deployment potential in real-world clinical settings. Uncertainty estimates of DLMs can increase trust by identifying predictions and images that need further review. Dice scores and coefficients (Dice) are benchmarks for evaluation of image segmentation performance, but are usually not evaluated with DLM uncertainty quantification. This study reports DLMs trained with uncertainty estimations, using randomly initialized weights and Monte Carlo dropout, to segment tumors from microscopic Hematoxylin and Eosin dye stained prostate core biopsy histology RGB images. Image-level maps showed significant correlation (Spearman's rank, p < 0.05) between overall and specific prostate tissue image sub-region uncertainties with model performance estimations by Dice. This study reports that linear models, which can predict Dice segmentation scores from multiple clinical sub-region-based uncertainties of prostate cancer, can serve as a more comprehensive performance evaluation metric without loss in predictive capability of DLMs, with a low root mean square error.

Large language models have already demonstrated their formidable capabilities in general domains, ushering in a revolutionary transformation. However, exploring and exploiting the extensive knowledge of these models to comprehend multi-omics biology remains underexplored. To fill this research gap, we first introduce Biology-Instructions, the first large-scale multi-omics biological sequences-related instruction-tuning dataset including DNA, RNA, proteins, and multi-molecules, designed to bridge the gap between large language models (LLMs) and complex biological sequences-related tasks. This dataset can enhance the versatility of LLMs by integrating diverse biological sequenced-based prediction tasks with advanced reasoning capabilities, while maintaining conversational fluency. Additionally, we reveal significant performance limitations in even state-of-the-art LLMs on biological sequence-related multi-omics tasks without specialized pre-training and instruction-tuning. We further develop a strong baseline called ChatMultiOmics with a novel three-stage training pipeline, demonstrating the powerful ability to understand biology by using Biology-Instructions. Biology-Instructions and ChatMultiOmics are publicly available and crucial resources for enabling more effective integration of LLMs with multi-omics sequence analysis.

Dementia is a neurodegenerative disorder that has been growing among elder people over the past decades. This growth profoundly impacts the quality of life for patients and caregivers due to the symptoms arising from it. Agitation and aggression (AA) are some of the symptoms of people with severe dementia (PwD) in long-term care or hospitals. AA not only causes discomfort but also puts the patients or others at potential risk. Existing monitoring solutions utilizing different wearable sensors integrated with Artificial Intelligence (AI) offer a way to detect AA early enough for timely and adequate medical intervention. However, most studies are limited by the availability of accurately labeled datasets, which significantly affects the efficacy of such solutions in real-world scenarios. This study presents a novel comprehensive approach to detect AA in PwD using physiological data from the Empatica E4 wristbands. The research creates a diverse dataset, consisting of three distinct datasets gathered from 14 participants across multiple hospitals in Canada. These datasets have not been extensively explored due to their limited labeling. We propose a novel approach employing self-training and a variational autoencoder (VAE) to detect AA in PwD effectively. The proposed approach aims to learn the representation of the features extracted using the VAE and then uses a semi-supervised block to generate labels, classify events, and detect AA. We demonstrate that combining Self-Training and Variational Autoencoder mechanism significantly improves model performance in classifying AA in PwD. Among the tested techniques, the XGBoost classifier achieved the highest accuracy of 90.16\%. By effectively addressing the challenge of limited labeled data, the proposed system not only learns new labels but also proves its superiority in detecting AA.

Instance selection (IS) is a crucial technique in machine learning that aims to reduce dataset size while maintaining model performance. This paper introduces a novel method called Graph Attention-based Instance Selection (GAIS), which leverages Graph Attention Networks (GATs) to identify the most informative instances in a dataset. GAIS represents the data as a graph and uses GATs to learn node representations, enabling it to capture complex relationships between instances. The method processes data in chunks, applies random masking and similarity thresholding during graph construction, and selects instances based on confidence scores from the trained GAT model. Experiments on 13 diverse datasets demonstrate that GAIS consistently outperforms traditional IS methods in terms of effectiveness, achieving high reduction rates (average 96\%) while maintaining or improving model performance. Although GAIS exhibits slightly higher computational costs, its superior performance in maintaining accuracy with significantly reduced training data makes it a promising approach for graph-based data selection.

Speech pathology has impacts on communication abilities and quality of life. While deep learning-based models have shown potential in diagnosing these disorders, the use of sensitive data raises critical privacy concerns. Although differential privacy (DP) has been explored in the medical imaging domain, its application in pathological speech analysis remains largely unexplored despite the equally critical privacy concerns. This study is the first to investigate DP's impact on pathological speech data, focusing on the trade-offs between privacy, diagnostic accuracy, and fairness. Using a large, real-world dataset of 200 hours of recordings from 2,839 German-speaking participants, we observed a maximum accuracy reduction of 3.85% when training with DP with high privacy levels. To highlight real-world privacy risks, we demonstrated the vulnerability of non-private models to explicit gradient inversion attacks, reconstructing identifiable speech samples and showcasing DP's effectiveness in mitigating these risks. To generalize our findings across languages and disorders, we validated our approach on a dataset of Spanish-speaking Parkinson's disease patients, leveraging pretrained models from healthy English-speaking datasets, and demonstrated that careful pretraining on large-scale task-specific datasets can maintain favorable accuracy under DP constraints. A comprehensive fairness analysis revealed minimal gender bias at reasonable privacy levels but underscored the need for addressing age-related disparities. Our results establish that DP can balance privacy and utility in speech disorder detection, while highlighting unique challenges in privacy-fairness trade-offs for speech data. This provides a foundation for refining DP methodologies and improving fairness across diverse patient groups in real-world deployments.

Trajectory anomaly detection, aiming to estimate the anomaly risk of trajectories given the Source-Destination (SD) pairs, has become a critical problem for many real-world applications. Existing solutions directly train a generative model for observed trajectories and calculate the conditional generative probability $P({T}|{C})$ as the anomaly risk, where ${T}$ and ${C}$ represent the trajectory and SD pair respectively. However, we argue that the observed trajectories are confounded by road network preference which is a common cause of both SD distribution and trajectories. Existing methods ignore this issue limiting their generalization ability on out-of-distribution trajectories. In this paper, we define the debiased trajectory anomaly detection problem and propose a causal implicit generative model, namely CausalTAD, to solve it. CausalTAD adopts do-calculus to eliminate the confounding bias of road network preference and estimates $P({T}|do({C}))$ as the anomaly criterion. Extensive experiments show that CausalTAD can not only achieve superior performance on trained trajectories but also generally improve the performance of out-of-distribution data, with improvements of $2.1\% \sim 5.7\%$ and $10.6\% \sim 32.7\%$ respectively.

Recent years have witnessed the emerging trend of extensions in modern Integrated Development Environments (IDEs) like Visual Studio Code (VSCode) that significantly enhance developer productivity. Especially, popular AI coding assistants like GitHub Copilot and Tabnine provide conveniences like automated code completion and debugging. While these extensions offer numerous benefits, they may introduce privacy and security concerns to software developers. However, there is no existing work that systematically analyzes the security and privacy concerns, including the risks of data exposure in VSCode extensions. In this paper, we investigate on the security issues of cross-extension interactions in VSCode and shed light on the vulnerabilities caused by data exposure among different extensions. Our study uncovers high-impact security flaws that could allow adversaries to stealthily acquire or manipulate credential-related data (e.g., passwords, API keys, access tokens) from other extensions if not properly handled by extension vendors. To measure their prevalence, we design a novel automated risk detection framework that leverages program analysis and natural language processing techniques to automatically identify potential risks in VSCode extensions. By applying our tool to 27,261 real-world VSCode extensions, we discover that 8.5% of them (i.e., 2,325 extensions) are exposed to credential-related data leakage through various vectors, such as commands, user input, and configurations. Our study sheds light on the security challenges and flaws of the extension-in-IDE paradigm and provides suggestions and recommendations for improving the security of VSCode extensions and mitigating the risks of data exposure.

Neuroimaging data, particularly from techniques like MRI or PET, offer rich but complex information about brain structure and activity. To manage this complexity, latent representation models - such as Autoencoders, Generative Adversarial Networks (GANs), and Latent Diffusion Models (LDMs) - are increasingly applied. These models are designed to reduce high-dimensional neuroimaging data to lower-dimensional latent spaces, where key patterns and variations related to brain function can be identified. By modeling these latent spaces, researchers hope to gain insights into the biology and function of the brain, including how its structure changes with age or disease, or how it encodes sensory information, predicts and adapts to new inputs. This review discusses how these models are used for clinical applications, like disease diagnosis and progression monitoring, but also for exploring fundamental brain mechanisms such as active inference and predictive coding. These approaches provide a powerful tool for both understanding and simulating the brain's complex computational tasks, potentially advancing our knowledge of cognition, perception, and neural disorders.