We propose a novel method, scTree, for single-cell Tree Variational Autoencoders, extending a hierarchical clustering approach to single-cell RNA sequencing data. scTree corrects for batch effects while simultaneously learning a tree-structured data representation. This VAE-based method allows for a more in-depth understanding of complex cellular landscapes independently of the biasing effects of batches. We show empirically on seven datasets that scTree discovers the underlying clusters of the data and the hierarchical relations between them, as well as outperforms established baseline methods across these datasets. Additionally, we analyze the learned hierarchy to understand its biological relevance, thus underpinning the importance of integrating batch correction directly into the clustering procedure.

Prostate cancer represents a major threat to health. Early detection is vital in reducing the mortality rate among prostate cancer patients. One approach involves using multi-modality (CT, MRI, US, etc.) computer-aided diagnosis (CAD) systems for the prostate region. However, prostate segmentation is challenging due to imperfections in the images and the prostate's complex tissue structure. The advent of precision medicine and a significant increase in clinical capacity have spurred the need for various data-driven tasks in the field of medical imaging. Recently, numerous machine learning and data mining tools have been integrated into various medical areas, including image segmentation. This article proposes a new classification method that differentiates supervision types, either in number or kind, during the training phase. Subsequently, we conducted a survey on artificial intelligence (AI)-based automatic prostate segmentation methods, examining the advantages and limitations of each. Additionally, we introduce variants of evaluation metrics for the verification and performance assessment of the segmentation method and summarize the current challenges. Finally, future research directions and development trends are discussed, reflecting the outcomes of our literature survey, suggesting high-precision detection and treatment of prostate cancer as a promising avenue.

From incorporating LLMs in education, to identifying new drugs and improving ways to charge batteries, innovators constantly try new strategies in search of better long-term outcomes for students, patients and consumers. One major bottleneck in this innovation cycle is the amount of time it takes to observe the downstream effects of a decision policy that incorporates new interventions. The key question is whether we can quickly evaluate long-term outcomes of a new decision policy without making long-term observations. Organizations often have access to prior data about past decision policies and their outcomes, evaluated over the full horizon of interest. Motivated by this, we introduce a new setting for short-long policy evaluation for sequential decision making tasks. Our proposed methods significantly outperform prior results on simulators of HIV treatment, kidney dialysis and battery charging. We also demonstrate that our methods can be useful for applications in AI safety by quickly identifying when a new decision policy is likely to have substantially lower performance than past policies.

Blood biomarkers are an essential tool for healthcare providers to diagnose, monitor, and treat a wide range of medical conditions. Current reference values and recommended ranges often rely on population-level statistics, which may not adequately account for the influence of inter-individual variability driven by factors such as lifestyle and genetics. In this work, we introduce a novel framework for predicting future blood biomarker values and define personalized references through learned representations from lifestyle data (physical activity and sleep) and blood biomarkers. Our proposed method learns a similarity-based embedding space that captures the complex relationship between biomarkers and lifestyle factors. Using the UK Biobank (257K participants), our results show that our deep-learned embeddings outperform traditional and current state-of-the-art representation learning techniques in predicting clinical diagnosis. Using a subset of UK Biobank of 6440 participants who have follow-up visits, we validate that the inclusion of these embeddings and lifestyle factors directly in blood biomarker models improves the prediction of future lab values from a single lab visit. This personalized modeling approach provides a foundation for developing more accurate risk stratification tools and tailoring preventative care strategies. In clinical settings, this translates to the potential for earlier disease detection, more timely interventions, and ultimately, a shift towards personalized healthcare.

Detecting anomalous behavior in dynamic networks remains a constant challenge. This problem is further exacerbated when the underlying topology of these networks is affected by individual highly-dimensional node attributes. We address this issue by tracking a network's modularity as a proxy of its community structure. We leverage Graph Neural Networks (GNNs) to estimate each snapshot's modularity. GNNs can account for both network structure and high-dimensional node attributes, providing a comprehensive approach for estimating network statistics. Our method is validated through simulations that demonstrate its ability to detect changes in highly-attributed networks by analyzing shifts in modularity. Moreover, we find our method is able to detect a real-world event within the \#Iran Twitter reply network, where each node has high-dimensional textual attributes.

We explore multiple-instance verification, a problem setting where a query instance is verified against a bag of target instances with heterogeneous, unknown relevancy. We show that naive adaptations of attention-based multiple instance learning (MIL) methods and standard verification methods like Siamese neural networks are unsuitable for this setting: directly combining state-of-the-art (SOTA) MIL methods and Siamese networks is shown to be no better, and sometimes significantly worse, than a simple baseline model. Postulating that this may be caused by the failure of the representation of the target bag to incorporate the query instance, we introduce a new pooling approach named ``cross-attention pooling'' (CAP). Under the CAP framework, we propose two novel attention functions to address the challenge of distinguishing between highly similar instances in a target bag. Through empirical studies on three different verification tasks, we demonstrate that CAP outperforms adaptations of SOTA MIL methods and the baseline by substantial margins, in terms of both classification accuracy and quality of the explanations provided for the classifications. Ablation studies confirm the superior ability of the new attention functions to identify key instances.

With the fast and unstoppable evolution of robotics and artificial intelligence, effective autonomous navigation in real-world scenarios has become one of the most pressing challenges in the literature. However, demanding requirements, such as real-time operation, energy and computational efficiency, robustness, and reliability, make most current solutions unsuitable for real-world challenges. Thus, researchers are forced to seek innovative approaches, such as bio-inspired solutions. Indeed, animals have the intrinsic ability to efficiently perceive, understand, and navigate their unstructured surroundings. To do so, they exploit self-motion cues, proprioception, and visual flow in a cognitive process to map their environment and locate themselves within it. Computational neuroscientists aim to answer ''how'' and ''why'' such cognitive processes occur in the brain, to design novel neuromorphic sensors and methods that imitate biological processing. This survey aims to comprehensively review the application of brain-inspired strategies to autonomous navigation, considering: neuromorphic perception and asynchronous event processing, energy-efficient and adaptive learning, or the imitation of the working principles of brain areas that play a crucial role in navigation such as the hippocampus or the entorhinal cortex.

Multi-label ranking, which returns multiple top-ranked labels for each instance, has a wide range of applications for visual tasks. Due to its complicated setting, prior arts have proposed various measures to evaluate model performances. However, both theoretical analysis and empirical observations show that a model might perform inconsistently on different measures. To bridge this gap, this paper proposes a novel measure named Top-K Pairwise Ranking (TKPR), and a series of analyses show that TKPR is compatible with existing ranking-based measures. In light of this, we further establish an empirical surrogate risk minimization framework for TKPR. On one hand, the proposed framework enjoys convex surrogate losses with the theoretical support of Fisher consistency. On the other hand, we establish a sharp generalization bound for the proposed framework based on a novel technique named data-dependent contraction. Finally, empirical results on benchmark datasets validate the effectiveness of the proposed framework.

This research presents a novel method for predicting service degradation (SD) in computer networks by leveraging early flow features. Our approach focuses on the observable (O) segments of network flows, particularly analyzing Packet Inter-Arrival Time (PIAT) values and other derived metrics, to infer the behavior of non-observable (NO) segments. Through a comprehensive evaluation, we identify an optimal O/NO split threshold of 10 observed delay samples, balancing prediction accuracy and resource utilization. Evaluating models including Logistic Regression, XGBoost, and Multi-Layer Perceptron, we find XGBoost outperforms others, achieving an F1-score of 0.74, balanced accuracy of 0.84, and AUROC of 0.97. Our findings highlight the effectiveness of incorporating comprehensive early flow features and the potential of our method to offer a practical solution for monitoring network traffic in resource-constrained environments. This approach ensures enhanced user experience and network performance by preemptively addressing potential SD, providing the basis for a robust framework for maintaining high-quality network services.

Recent advancements in language modeling have shown promising results when applied to time series data. In particular, fine-tuning pre-trained large language models (LLMs) for time series classification tasks has achieved state-of-the-art (SOTA) performance on standard benchmarks. However, these LLM-based models have a significant drawback due to the large model size, with the number of trainable parameters in the millions. In this paper, we propose an alternative approach to leveraging the success of language modeling in the time series domain. Instead of fine-tuning LLMs, we utilize a language embedding model to embed time series and then pair the embeddings with a simple classification head composed of convolutional neural networks (CNN) and multilayer perceptron (MLP). We conducted extensive experiments on well-established time series classification benchmark datasets. We demonstrated LETS-C not only outperforms the current SOTA in classification accuracy but also offers a lightweight solution, using only 14.5% of the trainable parameters on average compared to the SOTA model. Our findings suggest that leveraging language encoders to embed time series data, combined with a simple yet effective classification head, offers a promising direction for achieving high-performance time series classification while maintaining a lightweight model architecture.