Omni-Mol: Exploring Universal Convergent Space for Omni-Molecular Tasks

Building generalist models has recently demonstrated remarkable capabilities in diverse scientific domains. Within the realm of molecular learning, several studies have explored unifying diverse tasks across diverse domains. However, negative conflicts and interference between molecules and knowledge from different domain may have a worse impact in threefold. First, conflicting molecular representations can lead to optimization difficulties for the models. Second, mixing and scaling up training data across diverse tasks is inherently challenging. Third, the computational cost of refined pretraining is prohibitively high. To address these limitations, this paper presents Omni-Mol, a scalable and unified LLM-based framework for direct instruction tuning. Omni-Mol builds on three key components to tackles conflicts: (1) a unified encoding mechanism for any task input; (2) an active-learning-driven data selection strategy that significantly reduces dataset size; (3) a novel design of the adaptive gradient stabilization module and anchor-and-reconcile MoE framework that ensures stable convergence. Experimentally, Omni-Mol achieves state-of-the-art performance across 15 molecular tasks, demonstrates the presence of scaling laws in the molecular domain, and is supported by extensive ablation studies and analyses validating the effectiveness of its design. The code and weights of the powerful AI-driven chemistry generalist are open-sourced at: https://anonymous.4open.science/r/Omni-Mol-8EDB.

Exploring Hierarchical Molecular Graph Representation in Multimodal LLMs

Following the milestones in large language models (LLMs) and multimodal models, we have seen a surge in applying LLMs to biochemical tasks. Leveraging graph features and molecular text representations, LLMs can tackle various tasks, such as predicting chemical reaction outcomes and describing molecular properties. However, most current work overlooks the multi-level nature of graph features. The impact of different feature levels on LLMs and the importance of each level remain unexplored, and it is possible that different chemistry tasks require different feature levels. In this work, we first investigate the effect of feature granularity by fusing GNN-generated feature tokens, discovering that even reducing all tokens to a single token does not significantly impact performance. We then explore the effect of various feature levels on performance, finding that both the quality of LLM-generated molecules and performance on different tasks benefit from different feature levels. We conclude with two key insights: (1) current molecular Multimodal LLMs(MLLMs) lack a comprehensive understanding of graph features, and (2) static processing is not sufficient for hierarchical graph feature. Our code will be publicly available soon.