arXiv subjects

Deguang Liu

Publications and source records attributed to Deguang Liu.

3 recordsLinked to original sources

arXiv2025

Benchmarking Multimodal LLMs on Recognition and Understanding over Chemical Tables

With the widespread application of multimodal large language models in scientific intelligence, there is an urgent need for more challenging evaluation benchmarks to assess their ability to understand complex scientific data. Scientific tables, as core carriers of knowledge representation, combine text, symbols, and graphics, forming a typical multimodal reasoning scenario. However, existing benchmarks are mostly focused on general domains, failing to reflect the unique structural complexity and domain-specific semantics inherent in scientific research. Chemical tables are particularly representative: they intertwine structured variables such as reagents, conditions, and yields with visual symbols like molecular structures and chemical formulas, posing significant challenges to models in cross-modal alignment and semantic parsing. To address this, we propose ChemTable-a large scale benchmark of chemical tables constructed from real-world literature, containing expert-annotated cell layouts, logical structures, and domain-specific labels. It supports two core tasks: (1) table recognition (structure and content extraction); and (2) table understanding (descriptive and reasoning-based question answering). Evaluation on ChemTable shows that while mainstream multimodal models perform reasonably well in layout parsing, they still face significant limitations when handling critical elements such as molecular structures and symbolic conventions. Closed-source models lead overall but still fall short of human-level performance. This work provides a realistic testing platform for evaluating scientific multimodal understanding, revealing the current bottlenecks in domain-specific reasoning and advancing the development of intelligent systems for scientific research.

cs.AI↗

arXiv2024

MOL-Mamba: Enhancing Molecular Representation with Structural & Electronic Insights

Molecular representation learning plays a crucial role in various downstream tasks, such as molecular property prediction and drug design. To accurately represent molecules, Graph Neural Networks (GNNs) and Graph Transformers (GTs) have shown potential in the realm of self-supervised pretraining. However, existing approaches often overlook the relationship between molecular structure and electronic information, as well as the internal semantic reasoning within molecules. This omission of fundamental chemical knowledge in graph semantics leads to incomplete molecular representations, missing the integration of structural and electronic data. To address these issues, we introduce MOL-Mamba, a framework that enhances molecular representation by combining structural and electronic insights. MOL-Mamba consists of an Atom & Fragment Mamba-Graph (MG) for hierarchical structural reasoning and a Mamba-Transformer (MT) fuser for integrating molecular structure and electronic correlation learning. Additionally, we propose a Structural Distribution Collaborative Training and E-semantic Fusion Training framework to further enhance molecular representation learning. Extensive experiments demonstrate that MOL-Mamba outperforms state-of-the-art baselines across eleven chemical-biological molecular datasets.

cs.LG↗

arXiv2024

ChemEval: A Comprehensive Multi-Level Chemical Evaluation for Large Language Models

There is a growing interest in the role that LLMs play in chemistry which lead to an increased focus on the development of LLMs benchmarks tailored to chemical domains to assess the performance of LLMs across a spectrum of chemical tasks varying in type and complexity. However, existing benchmarks in this domain fail to adequately meet the specific requirements of chemical research professionals. To this end, we propose \textbf{\textit{ChemEval}}, which provides a comprehensive assessment of the capabilities of LLMs across a wide range of chemical domain tasks. Specifically, ChemEval identified 4 crucial progressive levels in chemistry, assessing 12 dimensions of LLMs across 42 distinct chemical tasks which are informed by open-source data and the data meticulously crafted by chemical experts, ensuring that the tasks have practical value and can effectively evaluate the capabilities of LLMs. In the experiment, we evaluate 12 mainstream LLMs on ChemEval under zero-shot and few-shot learning contexts, which included carefully selected demonstration examples and carefully designed prompts. The results show that while general LLMs like GPT-4 and Claude-3.5 excel in literature understanding and instruction following, they fall short in tasks demanding advanced chemical knowledge. Conversely, specialized LLMs exhibit enhanced chemical competencies, albeit with reduced literary comprehension. This suggests that LLMs have significant potential for enhancement when tackling sophisticated tasks in the field of chemistry. We believe our work will facilitate the exploration of their potential to drive progress in chemistry. Our benchmark and analysis will be available at {\color{blue} \url{https://github.com/USTC-StarTeam/ChemEval}}.

cs.CL↗