Yuqian Wu

Yuqian Wu, Zhijie Deng, Wei Chen et al.

Lifelong digital companions must integrate cross-session cues, continually update their understanding of users, and adapt to shifting privacy boundaries. Existing evaluations fail to capture this, testing memory recall and short-term empathy in isolation. To bridge this gap, we introduce \benchmark, a benchmark centered on multi-session \textit{Memory-Emotion-Environment} loops. By modeling users as persistent worlds with layered profiles and event trajectories, \benchmark uses multi-agent simulation to project environmental dynamics into dialogue, preserving the critical gap between latent thoughts and observable expressions. Evaluating 2,000 personas and 111K tasks across memory tracking, user understanding, privacy control, and emotional companionship, our experiment results reveal a stark reality: even models that saturate current memory benchmarks fail to sustain accurate user understanding and true companionship over long horizons.

Jiapeng Yu, Yuqian Wu, Yajing Zhan et al.

Online question-and-answer (Q\&A) systems based on the Large Language Model (LLM) have progressively diverged from recreational to professional use. This paper proposed a Multi-Agent framework with environmentally reinforcement learning (E-RL) for code correction called Code Learning (Co-Learning) community, assisting beginners to correct code errors independently. It evaluates the performance of multiple LLMs from an original dataset with 702 error codes, uses it as a reward or punishment criterion for E-RL; Analyzes input error codes by the current agent; selects the appropriate LLM-based agent to achieve optimal error correction accuracy and reduce correction time. Experiment results showed that 3\% improvement in Precision score and 15\% improvement in time cost as compared with no E-RL method respectively. Our source code is available at: https://github.com/yuqian2003/Co_Learning

Yuqian Wu, Yuhong Peng, Jiapeng Yu et al.

LLM-based Multi-Agent Systems have potential benefits of complex decision-making tasks management across various domains but their applications in the next Point-of-Interest (POI) recommendation remain underexplored. This paper proposes a novel MAS4POI system designed to enhance next POI recommendations through multi-agent interactions. MAS4POI supports Large Language Models (LLMs) specializing in distinct agents such as DataAgent, Manager, Analyst, and Navigator with each contributes to a collaborative process of generating the next POI recommendations.The system is examined by integrating six distinct LLMs and evaluated by two real-world datasets for recommendation accuracy improvement in real-world scenarios. Our code is available at https://github.com/yuqian2003/MAS4POI.

Wei Chen, Yuqian Wu, Junle Chen et al.

Urban systems, as dynamic complex systems, continuously generate spatio-temporal data streams that encode the fundamental laws of human mobility and city evolution. While AI for Science has witnessed the transformative power of foundation models in disciplines like genomics and meteorology, urban computing remains fragmented due to "scenario-specific" models, which are overfitted to specific regions or tasks, hindering their generalizability. To bridge this gap and advance spatio-temporal foundation models for urban systems, we adopt scaling as the central perspective and systematically investigate two key questions: what to scale and how to scale. Grounded in first-principles analysis, we identify three critical dimensions: heterogeneity, correlation, and dynamics, aligning these principles with the fundamental scientific properties of urban spatio-temporal data. Specifically, to address heterogeneity through data scaling, we construct WorldST. This billion-scale corpus standardizes diverse physical signals, such as traffic flow and speed, from over 100 global cities into a unified data format. To enable computation scaling for modeling correlations, we introduce the MiniST unit, a novel split mechanism that discretizes continuous spatio-temporal fields into learnable computational units to unify representations of grid-based and sensor-based observations. Finally, addressing dynamics via architecture scaling, we propose UrbanFM, a minimalist self-attention architecture designed with limited inductive biases to autonomously learn dynamic spatio-temporal dependencies from massive data. Furthermore, we establish EvalST, the largest-scale urban spatio-temporal benchmark to date. Extensive experiments demonstrate that UrbanFM achieves remarkable zero-shot generalization across unseen cities and tasks, marking a pivotal first step toward large-scale urban spatio-temporal foundation models.

Wei Chen, Junle Chen, Yuqian Wu et al.

Spatio-temporal forecasting is fundamental to intelligent systems in transportation, climate science, and urban planning. However, training deep learning models on the massive, often redundant, datasets from these domains presents a significant computational bottleneck. Existing solutions typically focus on optimizing model architectures or optimizers, while overlooking the inherent inefficiency of the training data itself. This conventional approach of iterating over the entire static dataset each epoch wastes considerable resources on easy-to-learn or repetitive samples. In this paper, we explore a novel training-efficiency techniques, namely learning from complexity with dynamic sample pruning, ST-Prune, for spatio-temporal forecasting. Through dynamic sample pruning, we aim to intelligently identify the most informative samples based on the model's real-time learning state, thereby accelerating convergence and improving training efficiency. Extensive experiments conducted on real-world spatio-temporal datasets show that ST-Prune significantly accelerates the training speed while maintaining or even improving the model performance, and it also has scalability and universality.

Yuqian Wu, Hengyi Luo, Raymond S. T. Lee

Tabular data learning has extensive applications in deep learning but its existing embedding techniques are limited in numerical and categorical features such as the inability to capture complex relationships and engineering. This paper proposes a novel deep embedding framework with leverages lightweight deep neural networks to generate effective feature embeddings for tabular data in machine learning research. For numerical features, a two-step feature expansion and deep transformation technique is used to capture copious semantic information. For categorical features, a unique identification vector for each entity is referred by a compact lookup table with a parameterized deep embedding function to uniform the embedding size dimensions, and transformed into a embedding vector using deep neural network. Experiments are conducted on real-world datasets for performance evaluation.

Yuqian Wu, Yuhong Peng, Jiapeng Yu et al.

Next location prediction is a key task in human mobility analysis, crucial for applications like smart city resource allocation and personalized navigation services. However, existing methods face two significant challenges: first, they fail to address the dynamic imbalance between periodic and chaotic mobile patterns, leading to inadequate adaptation over sparse trajectories; second, they underutilize contextual cues, such as temporal regularities in arrival times, which persist even in chaotic patterns and offer stronger predictability than spatial forecasts due to reduced search spaces. To tackle these challenges, we propose \textbf{\method}, a \underline{\textbf{C}}h\underline{\textbf{A}}otic \underline{\textbf{N}}eural \underline{\textbf{O}}scillator n\underline{\textbf{E}}twork for next location prediction, which introduces a biologically inspired Chaotic Neural Oscillatory Attention mechanism to inject adaptive variability into traditional attention, enabling balanced representation of evolving mobility behaviors, and employs a Tri-Pair Interaction Encoder along with a Cross Context Attentive Decoder to fuse multimodal ``who-when-where'' contexts in a joint framework for enhanced prediction performance. Extensive experiments on two real-world datasets demonstrate that CANOE consistently and significantly outperforms a sizeable collection of state-of-the-art baselines, yielding 3.17\%-13.11\% improvement over the best-performing baselines across different cases. In particular, CANOE can make robust predictions over mobility trajectories of different mobility chaotic levels. A series of ablation studies also supports our key design choices. Our code is available at: https://github.com/yuqian2003/CANOE.

Ruochi Zhang, Haoran Wu, Chang Liu et al.

Recent advances in protein language models have catalyzed significant progress in peptide sequence representation. Despite extensive exploration in this field, pre-trained models tailored for peptide-specific needs remain largely unaddressed due to the difficulty in capturing the complex and sometimes unstable structures of peptides. This study introduces a novel multi-view contrastive learning framework PepHarmony for the sequence-based peptide encoding task. PepHarmony innovatively combines both sequence- and structure-level information into a sequence-level encoding module through contrastive learning. We carefully select datasets from the Protein Data Bank (PDB) and AlphaFold database to encompass a broad spectrum of peptide sequences and structures. The experimental data highlights PepHarmony's exceptional capability in capturing the intricate relationship between peptide sequences and structures compared with the baseline and fine-tuned models. The robustness of our model is confirmed through extensive ablation studies, which emphasize the crucial roles of contrastive loss and strategic data sorting in enhancing predictive performance. The proposed PepHarmony framework serves as a notable contribution to peptide representations, and offers valuable insights for future applications in peptide drug discovery and peptide engineering. We have made all the source code utilized in this study publicly accessible via GitHub at https://github.com/zhangruochi/PepHarmony or http://www.healthinformaticslab.org/supp/.

Kewei Li, Yuqian Wu, Yinheng Li et al.

Since the mechanism of action of drug molecules in the human body is difficult to reproduce in the in vitro environment, it becomes difficult to reveal the causes of the activity cliff phenomenon of drug molecules. We found out the AC of small molecules has been extensively investigated but limited knowledge is accumulated about the AC phenomenon in peptides with canonical amino acids. Understanding the mechanism of AC in canonical amino acids might help understand the one in drug molecules. This study introduces a quantitative definition and benchmarking framework AMPCliff for the AC phenomenon in antimicrobial peptides (AMPs) composed by canonical amino acids. A comprehensive analysis of the existing AMP dataset reveals a significant prevalence of AC within AMPs. AMPCliff quantifies the activities of AMPs by the MIC, and defines 0.9 as the minimum threshold for the normalized BLOSUM62 similarity score between a pair of aligned peptides with at least two-fold MIC changes. This study establishes a benchmark dataset of paired AMPs in Staphylococcus aureus from the publicly available AMP dataset GRAMPA, and conducts a rigorous procedure to evaluate various AMP AC prediction models, including nine machine learning, four deep learning algorithms, four masked language models, and four generative language models. Our analysis reveals that these models are capable of detecting AMP AC events and the pre-trained protein language model ESM2 demonstrates superior performance across the evaluations. The predictive performance of AMP activity cliffs remains to be further improved, considering that ESM2 with 33 layers only achieves the Spearman correlation coefficient 0.4669 for the regression task of the MIC values on the benchmark dataset. Source code and additional resources are available at https://www.healthinformaticslab.org/supp/ or https://github.com/Kewei2023/AMPCliff-generation.

Yuqian Wu, Wei Chen, Zhengjun Huang et al.

Existing conversational memory systems rely on complex hierarchical summarization or reinforcement learning to manage long-term dialogue history, yet remain vulnerable to context dilution as conversations grow. In this work, we offer a different perspective: the primary bottleneck may lie not in memory architecture, but in the \textit{Signal Sparsity Effect} within the latent knowledge manifold. Through controlled experiments, we identify two key phenomena: \textit{Decisive Evidence Sparsity}, where relevant signals become increasingly isolated with longer sessions, leading to sharp degradation in aggregation-based methods; and \textit{Dual-Level Redundancy}, where both inter-session interference and intra-session conversational filler introduce large amounts of non-informative content, hindering effective generation. Motivated by these insights, we propose \method, a minimalist framework that brings conversational memory back to basics, relying solely on retrieval and generation via Turn Isolation Retrieval (TIR) and Query-Driven Pruning (QDP). TIR replaces global aggregation with a max-activation strategy to capture turn-level signals, while QDP removes redundant sessions and conversational filler to construct a compact, high-density evidence set. Extensive experiments on multiple benchmarks demonstrate that \method achieves robust performance across diverse settings, consistently outperforming strong baselines while maintaining high efficiency in tokens and latency, establishing a new minimalist baseline for conversational memory.

Wei Chen, Yuqian Wu, Yuanshao Zhu et al.

Spatio-temporal forecasting aims to predict the future state of dynamic systems and plays an important role in multiple fields. However, existing solutions only focus on modeling using a limited number of observed target variables. In real-world scenarios, exogenous variables can be integrated into the model as additional input features and associated with the target signal to promote forecast accuracy. Although promising, this still encounters two challenges: the inconsistent effects of different exogenous variables to the target system, and the imbalance effects between historical variables and future variables. To address these challenges, this paper introduces \model, a novel framework for modeling \underline{exo}genous variables in \underline{s}patio-\underline{t}emporal forecasting, which follows a ``select, then balance'' paradigm. Specifically, we first construct a latent space gated expert module, where fused exogenous information is projected into a latent space to dynamically select and recompose salient signals via specialized sub-experts. Furthermore, we design a siamese network architecture in which recomposed representations of past and future exogenous variables are fed into dual-branch spatio-temporal backbones to capture dynamic patterns. The outputs are integrated through a context-aware weighting mechanism to achieve dynamic balance during the modeling process. Extensive experiments on real-world datasets demonstrate the effectiveness, generality, robustness, and efficiency of our proposed framework.