arXiv subjects

Truong-Son Hy

Publications and source records attributed to Truong-Son Hy.

At least 37 records · Page 2Linked to original sources

arXiv2025

LINKER: Learning Interactions Between Functional Groups and Residues With Chemical Knowledge-Enhanced Reasoning and Explainability

Accurate identification of interactions between protein residues and ligand functional groups is essential to understand molecular recognition and guide rational drug design. Existing deep learning approaches for protein-ligand interpretability often rely on 3D structural input or use distance-based contact labels, limiting both their applicability and biological relevance. We introduce LINKER, the first sequence-based model to predict residue-functional group interactions in terms of biologically defined interaction types, using only protein sequences and the ligand SMILES as input. LINKER is trained with structure-supervised attention, where interaction labels are derived from 3D protein-ligand complexes via functional group-based motif extraction. By abstracting ligand structures into functional groups, the model focuses on chemically meaningful substructures while predicting interaction types rather than mere spatial proximity. Crucially, LINKER requires only sequence-level input at inference time, enabling large-scale application in settings where structural data is unavailable. Experiments on the LP-PDBBind benchmark demonstrate that structure-informed supervision over functional group abstractions yields interaction predictions closely aligned with ground-truth biochemical annotations.

cs.LG↗

arXiv2025

Sentiment Reasoning for Healthcare

Transparency in AI healthcare decision-making is crucial. By incorporating rationales to explain reason for each predicted label, users could understand Large Language Models (LLMs)'s reasoning to make better decision. In this work, we introduce a new task - Sentiment Reasoning - for both speech and text modalities, and our proposed multimodal multitask framework and the world's largest multimodal sentiment analysis dataset. Sentiment Reasoning is an auxiliary task in sentiment analysis where the model predicts both the sentiment label and generates the rationale behind it based on the input transcript. Our study conducted on both human transcripts and Automatic Speech Recognition (ASR) transcripts shows that Sentiment Reasoning helps improve model transparency by providing rationale for model prediction with quality semantically comparable to humans while also improving model's classification performance (+2% increase in both accuracy and macro-F1) via rationale-augmented fine-tuning. Also, no significant difference in the semantic quality of generated rationales between human and ASR transcripts. All code, data (five languages - Vietnamese, English, Chinese, German, and French) and models are published online: https://github.com/leduckhai/Sentiment-Reasoning

cs.CL↗

arXiv2025

Multimodal Contrastive Representation Learning in Augmented Biomedical Knowledge Graphs

Biomedical Knowledge Graphs (BKGs) integrate diverse datasets to elucidate complex relationships within the biomedical field. Effective link prediction on these graphs can uncover valuable connections, such as potential novel drug-disease relations. We introduce a novel multimodal approach that unifies embeddings from specialized Language Models (LMs) with Graph Contrastive Learning (GCL) to enhance intra-entity relationships while employing a Knowledge Graph Embedding (KGE) model to capture inter-entity relationships for effective link prediction. To address limitations in existing BKGs, we present PrimeKG++, an enriched knowledge graph incorporating multimodal data, including biological sequences and textual descriptions for each entity type. By combining semantic and relational information in a unified representation, our approach demonstrates strong generalizability, enabling accurate link predictions even for unseen nodes. Experimental results on PrimeKG++ and the DrugBank drug-target interaction dataset demonstrate the effectiveness and robustness of our method across diverse biomedical datasets. Our source code, pre-trained models, and data are publicly available at https://github.com/HySonLab/BioMedKG

cs.CL↗

arXiv2025

Towards Robust Fact-Checking: A Multi-Agent System with Advanced Evidence Retrieval

The rapid spread of misinformation in the digital era poses significant challenges to public discourse, necessitating robust and scalable fact-checking solutions. Traditional human-led fact-checking methods, while credible, struggle with the volume and velocity of online content, prompting the integration of automated systems powered by Large Language Models (LLMs). However, existing automated approaches often face limitations, such as handling complex claims, ensuring source credibility, and maintaining transparency. This paper proposes a novel multi-agent system for automated fact-checking that enhances accuracy, efficiency, and explainability. The system comprises four specialized agents: an Input Ingestion Agent for claim decomposition, a Query Generation Agent for formulating targeted subqueries, an Evidence Retrieval Agent for sourcing credible evidence, and a Verdict Prediction Agent for synthesizing veracity judgments with human-interpretable explanations. Evaluated on benchmark datasets (FEVEROUS, HOVER, SciFact), the proposed system achieves a 12.3% improvement in Macro F1-score over baseline methods. The system effectively decomposes complex claims, retrieves reliable evidence from trusted sources, and generates transparent explanations for verification decisions. Our approach contributes to the growing field of automated fact-checking by providing a more accurate, efficient, and transparent verification methodology that aligns with human fact-checking practices while maintaining scalability for real-world applications. Our source code is available at https://github.com/HySonLab/FactAgent

cs.AI↗

arXiv2025

Repeton: Structured Bug Repair with ReAct-Guided Patch-and-Test Cycles

Large Language Models (LLMs) have shown strong capabilities in code generation and comprehension, yet their application to complex software engineering tasks often suffers from low precision and limited interpretability. We present Repeton, a fully open-source framework that leverages LLMs for precise and automated code manipulation in real-world Git repositories. Rather than generating holistic fixes, Repeton operates through a structured patch-and-test pipeline: it iteratively diagnoses issues, proposes code changes, and validates each patch through automated testing. This stepwise process is guided by lightweight heuristics and development tools, avoiding reliance on embedding-based retrieval systems. Evaluated on the SWE-bench Lite benchmark, our method shows good performance compared to RAG-based methods in both patch validity and interpretability. By decomposing software engineering tasks into modular, verifiable stages, Repeton provides a practical path toward scalable and transparent autonomous debugging.

cs.SE↗

arXiv2025

OZSpeech: One-step Zero-shot Speech Synthesis with Learned-Prior-Conditioned Flow Matching

Text-to-speech (TTS) systems have seen significant advancements in recent years, driven by improvements in deep learning and neural network architectures. Viewing the output speech as a data distribution, previous approaches often employ traditional speech representations, such as waveforms or spectrograms, within the Flow Matching framework. However, these methods have limitations, including overlooking various speech attributes and incurring high computational costs due to additional constraints introduced during training. To address these challenges, we introduce OZSpeech, the first TTS method to explore optimal transport conditional flow matching with one-step sampling and a learned prior as the condition, effectively disregarding preceding states and reducing the number of sampling steps. Our approach operates on disentangled, factorized components of speech in token format, enabling accurate modeling of each speech attribute, which enhances the TTS system's ability to precisely clone the prompt speech. Experimental results show that our method achieves promising performance over existing methods in content accuracy, naturalness, prosody generation, and speaker style preservation. Audio samples are available at our demo page https://ozspeech.github.io/OZSpeech_Web/.

cs.SD↗

arXiv2025

IQBench: How "Smart'' Are Vision-Language Models? A Study with Human IQ Tests

Although large Vision-Language Models (VLMs) have demonstrated remarkable performance in a wide range of multimodal tasks, their true reasoning capabilities on human IQ tests remain underexplored. To advance research on the fluid intelligence of VLMs, we introduce **IQBench**, a new benchmark designed to evaluate VLMs on standardized visual IQ tests. We focus on evaluating the reasoning capabilities of VLMs, which we argue are more important than the accuracy of the final prediction. **Our benchmark is visually centric, minimizing the dependence on unnecessary textual content**, thus encouraging models to derive answers primarily from image-based information rather than learned textual knowledge. To this end, we manually collected and annotated 500 visual IQ questions to **prevent unintentional data leakage during training**. Unlike prior work that focuses primarily on the accuracy of the final answer, we evaluate the reasoning ability of the models by assessing their explanations and the patterns used to solve each problem, along with the accuracy of the final prediction and human evaluation. Our experiments show that there are substantial performance disparities between tasks, with models such as `o4-mini`, `gemini-2.5-flash`, and `claude-3.7-sonnet` achieving the highest average accuracies of 0.615, 0.578, and 0.548, respectively. However, all models struggle with 3D spatial and anagram reasoning tasks, highlighting significant limitations in current VLMs' general reasoning abilities. In terms of reasoning scores, `o4-mini`, `gemini-2.5-flash`, and `claude-3.7-sonnet` achieved top averages of 0.696, 0.586, and 0.516, respectively. These results highlight inconsistencies between the reasoning processes of the models and their final answers, emphasizing the importance of evaluating the accuracy of the reasoning in addition to the final predictions.

cs.CV↗

arXiv2025

MultiMed: Multilingual Medical Speech Recognition via Attention Encoder Decoder

Multilingual automatic speech recognition (ASR) in the medical domain serves as a foundational task for various downstream applications such as speech translation, spoken language understanding, and voice-activated assistants. This technology improves patient care by enabling efficient communication across language barriers, alleviating specialized workforce shortages, and facilitating improved diagnosis and treatment, particularly during pandemics. In this work, we introduce MultiMed, the first multilingual medical ASR dataset, along with the first collection of small-to-large end-to-end medical ASR models, spanning five languages: Vietnamese, English, German, French, and Mandarin Chinese. To our best knowledge, MultiMed stands as the world's largest medical ASR dataset across all major benchmarks: total duration, number of recording conditions, number of accents, and number of speaking roles. Furthermore, we present the first multilinguality study for medical ASR, which includes reproducible empirical baselines, a monolinguality-multilinguality analysis, Attention Encoder Decoder (AED) vs Hybrid comparative study and a linguistic analysis. We present practical ASR end-to-end training schemes optimized for a fixed number of trainable parameters that are common in industry settings. All code, data, and models are available online: https://github.com/leduckhai/MultiMed/tree/master/MultiMed.

cs.CL↗

arXiv2025

Topology-Guided Knowledge Distillation for Efficient Point Cloud Processing

Point cloud processing has gained significant attention due to its critical role in applications such as autonomous driving and 3D object recognition. However, deploying high-performance models like Point Transformer V3 in resource-constrained environments remains challenging due to their high computational and memory demands. This work introduces a novel distillation framework that leverages topology-aware representations and gradient-guided knowledge distillation to effectively transfer knowledge from a high-capacity teacher to a lightweight student model. Our approach captures the underlying geometric structures of point clouds while selectively guiding the student model's learning process through gradient-based feature alignment. Experimental results in the Nuscenes, SemanticKITTI, and Waymo datasets demonstrate that the proposed method achieves competitive performance, with an approximately 16x reduction in model size and a nearly 1.9x decrease in inference time compared to its teacher model. Notably, on NuScenes, our method achieves state-of-the-art performance among knowledge distillation techniques trained solely on LiDAR data, surpassing prior knowledge distillation baselines in segmentation performance. Our implementation is available publicly at: https://github.com/HySonLab/PointDistill

cs.CV↗

arXiv2025

Advances in Protein Representation Learning: Methods, Applications, and Future Directions

Proteins are complex biomolecules that play a central role in various biological processes, making them critical targets for breakthroughs in molecular biology, medical research, and drug discovery. Deciphering their intricate, hierarchical structures, and diverse functions is essential for advancing our understanding of life at the molecular level. Protein Representation Learning (PRL) has emerged as a transformative approach, enabling the extraction of meaningful computational representations from protein data to address these challenges. In this paper, we provide a comprehensive review of PRL research, categorizing methodologies into five key areas: feature-based, sequence-based, structure-based, multimodal, and complex-based approaches. To support researchers in this rapidly evolving field, we introduce widely used databases for protein sequences, structures, and functions, which serve as essential resources for model development and evaluation. We also explore the diverse applications of these approaches in multiple domains, demonstrating their broad impact. Finally, we discuss pressing technical challenges and outline future directions to advance PRL, offering insights to inspire continued innovation in this foundational field.

cs.LG↗

arXiv2025

EquiHGNN: Scalable Rotationally Equivariant Hypergraph Neural Networks

Molecular interactions often involve high-order relationships that cannot be fully captured by traditional graph-based models limited to pairwise connections. Hypergraphs naturally extend graphs by enabling multi-way interactions, making them well-suited for modeling complex molecular systems. In this work, we introduce EquiHGNN, an Equivariant HyperGraph Neural Network framework that integrates symmetry-aware representations to improve molecular modeling. By enforcing the equivariance under relevant transformation groups, our approach preserves geometric and topological properties, leading to more robust and physically meaningful representations. We examine a range of equivariant architectures and demonstrate that integrating symmetry constraints leads to notable performance gains on large-scale molecular datasets. Experiments on both small and large molecules show that high-order interactions offer limited benefits for small molecules but consistently outperform 2D graphs on larger ones. Adding geometric features to these high-order structures further improves the performance, emphasizing the value of spatial information in molecular learning. Our source code is available at https://github.com/HySonLab/EquiHGNN/

cs.LG↗

arXiv2025

Multimodal graph representation learning for website generation based on visual sketch

The Design2Code problem, which involves converting digital designs into functional source code, is a significant challenge in software development due to its complexity and time-consuming nature. Traditional approaches often struggle with accurately interpreting the intricate visual details and structural relationships inherent in webpage designs, leading to limitations in automation and efficiency. In this paper, we propose a novel method that leverages multimodal graph representation learning to address these challenges. By integrating both visual and structural information from design sketches, our approach enhances the accuracy and efficiency of code generation, particularly in producing semantically correct and structurally sound HTML code. We present a comprehensive evaluation of our method, demonstrating significant improvements in both accuracy and efficiency compared to existing techniques. Extensive evaluation demonstrates significant improvements of multimodal graph learning over existing techniques, highlighting the potential of our method to revolutionize design-to-code automation. Code available at https://github.com/HySonLab/Design2Code

cs.LG↗

arXiv2025

SilVar-Med: A Speech-Driven Visual Language Model for Explainable Abnormality Detection in Medical Imaging

Medical Visual Language Models have shown great potential in various healthcare applications, including medical image captioning and diagnostic assistance. However, most existing models rely on text-based instructions, limiting their usability in real-world clinical environments especially in scenarios such as surgery, text-based interaction is often impractical for physicians. In addition, current medical image analysis models typically lack comprehensive reasoning behind their predictions, which reduces their reliability for clinical decision-making. Given that medical diagnosis errors can have life-changing consequences, there is a critical need for interpretable and rational medical assistance. To address these challenges, we introduce an end-to-end speech-driven medical VLM, SilVar-Med, a multimodal medical image assistant that integrates speech interaction with VLMs, pioneering the task of voice-based communication for medical image analysis. In addition, we focus on the interpretation of the reasoning behind each prediction of medical abnormalities with a proposed reasoning dataset. Through extensive experiments, we demonstrate a proof-of-concept study for reasoning-driven medical image interpretation with end-to-end speech interaction. We believe this work will advance the field of medical AI by fostering more transparent, interactive, and clinically viable diagnostic support systems. Our code and dataset are publicly available at SiVar-Med.

cs.CV↗

arXiv2025

Real-time Speech Summarization for Medical Conversations

In doctor-patient conversations, identifying medically relevant information is crucial, posing the need for conversation summarization. In this work, we propose the first deployable real-time speech summarization system for real-world applications in industry, which generates a local summary after every N speech utterances within a conversation and a global summary after the end of a conversation. Our system could enhance user experience from a business standpoint, while also reducing computational costs from a technical perspective. Secondly, we present VietMed-Sum which, to our knowledge, is the first speech summarization dataset for medical conversations. Thirdly, we are the first to utilize LLM and human annotators collaboratively to create gold standard and synthetic summaries for medical conversation summarization. Finally, we present baseline results of state-of-the-art models on VietMed-Sum. All code, data (English-translated and Vietnamese) and models are available online: https://github.com/leduckhai/MultiMed/tree/master/VietMed-Sum

cs.CL↗

arXiv2025

Medical Spoken Named Entity Recognition

Spoken Named Entity Recognition (NER) aims to extract named entities from speech and categorise them into types like person, location, organization, etc. In this work, we present VietMed-NER - the first spoken NER dataset in the medical domain. To our knowledge, our Vietnamese real-world dataset is the largest spoken NER dataset in the world regarding the number of entity types, featuring 18 distinct types. Furthermore, we present baseline results using various state-of-the-art pre-trained models: encoder-only and sequence-to-sequence; and conduct quantitative and qualitative error analysis. We found that pre-trained multilingual models generally outperform monolingual models on reference text and ASR output and encoders outperform sequence-to-sequence models in NER tasks. By translating the transcripts, the dataset can also be utilised for text NER in the medical domain in other languages than Vietnamese. All code, data and models are publicly available: https://github.com/leduckhai/MultiMed/tree/master/VietMed-NER.

eess.AS↗

arXiv2025

MOB-GCN: A Novel Multiscale Object-Based Graph Neural Network for Hyperspectral Image Classification

This paper introduces a novel multiscale object-based graph neural network called MOB-GCN for hyperspectral image (HSI) classification. The central aim of this study is to enhance feature extraction and classification performance by utilizing multiscale object-based image analysis (OBIA). Traditional pixel-based methods often suffer from low accuracy and speckle noise, while single-scale OBIA approaches may overlook crucial information of image objects at different levels of detail. MOB-GCN addresses this issue by extracting and integrating features from multiple segmentation scales to improve classification results using the Multiresolution Graph Network (MGN) architecture that can model fine-grained and global spatial patterns. By constructing a dynamic multiscale graph hierarchy, MOB-GCN offers a more comprehensive understanding of the intricate details and global context of HSIs. Experimental results demonstrate that MOB-GCN consistently outperforms single-scale graph convolutional networks (GCNs) in terms of classification accuracy, computational efficiency, and noise reduction, particularly when labeled data is limited. The implementation of MOB-GCN is publicly available at https://github.com/HySonLab/MultiscaleHSI

cs.CV↗

arXiv2025

Hybridising Reinforcement Learning and Heuristics for Hierarchical Directed Arc Routing Problems

The Hierarchical Directed Capacitated Arc Routing Problem (HDCARP) is an extension of the Capacitated Arc Routing Problem (CARP), where the arcs of a graph are divided into classes based on their priority. The traversal of these classes is determined by either precedence constraints or a hierarchical objective, resulting in two distinct HDCARP variants. To the best of our knowledge, only one matheuristic has been proposed for these variants, but it performs relatively slowly, particularly for large-scale instances (Ha et al., 2024). In this paper, we propose a fast heuristic to efficiently address the computational challenges of HDCARP. Furthermore, we incorporate Reinforcement Learning (RL) into our heuristic to effectively guide the selection of local search operators, resulting in a hybrid algorithm. We name this hybrid algorithm as the Hybrid Reinforcement Learning and Heuristic Algorithm for Directed Arc Routing (HRDA). The hybrid algorithm adapts to changes in the problem dynamically, using real-time feedback to improve routing strategies and solution's quality by integrating heuristic methods. Extensive computational experiments on artificial instances demonstrate that this hybrid approach significantly improves the speed of the heuristic without deteriorating the solution quality. Our source code is publicly available at: https://github.com/HySonLab/ArcRoute

cs.LG↗

arXiv2024

SilVar: Speech Driven Multimodal Model for Reasoning Visual Question Answering and Object Localization

Visual Language Models have demonstrated remarkable capabilities across tasks, including visual question answering and image captioning. However, most models rely on text-based instructions, limiting their effectiveness in human-machine interactions. Moreover, the quality of language models depends on reasoning and prompting techniques, such as COT, which remain underexplored when using speech instructions. To address these challenges, we propose SilVar, a novel end-to-end multimodal model that uses speech instructions for reasoning in visual question answering. In addition, we investigate reasoning techniques with levels including conversational, simple, and complex speech instruction. SilVar is built upon CLIP, Whisper, and LLaMA 3.1-8B, enabling intuitive interactions by allowing users to provide verbal or text instructions. To this end, we introduce a dataset designed to challenge models with speech-based reasoning tasks for object localization. This dataset enhances the model ability to process and explain visual scenes from spoken input, moving beyond object recognition to reasoning-based interactions. The experiments show that SilVar achieves SOTA performance on the MMMU and ScienceQA benchmarks despite the challenge of speech-based instructions. We believe SilVar will inspire next-generation multimodal reasoning models, toward expert artificial general intelligence. Our code and dataset are available here.

cs.CV↗