arXiv:2607. 03007v1 Announce Type: cross Abstract: Recent advances in molecular large language models have led to strong performance on molecular understanding and generation tasks, yet these gains often come without reliable structural grounding.
arXiv:2607. 01982v1 Announce Type: cross Abstract: Using molecular large language models (LLMs) as a unified framework for understanding molecular structures and functions is emerging as a new trend in tasks such as molecular design and drug discovery.
arXiv:2606. 03057v1 Announce Type: cross Abstract: Large language models (LLMs) are increasingly used for molecular tasks, but it remains unclear which molecular representation to use.
arXiv:2607. 02140v1 Announce Type: new Abstract: Chemical language models (CLMs) are trained with linearized representations such as SMILES, yet it remains unclear which chemically meaningful substructures they encode.
arXiv:2510.07289v2 Announce Type: replace Abstract: Molecular graph representation learning is widely used in chemical and biomedical research. While pre-trained 2D graph encoders have demonstrated s...
arXiv:2606. 11382v1 Announce Type: new Abstract: Deep learning models facilitate the discovery of molecules with tailored properties among billions of candidate compounds.
arXiv:2607. 13115v1 Announce Type: new Abstract: Small language models (SLMs) have shown promise for zero-shot molecular property prediction from SMILES strings, yet they often suffer from structural blindness because sequence representations under-specify key graph-topological cues.
Large language models (LLMs) are widely applied across chemical tasks, such as molecular property prediction, which underpins drug discovery. Molecular LLMs represent a molecule through several modalities, notably a 1D SMILES sequence or a 2D molecular graph.
arXiv:2608. 10480v1 Announce Type: new Abstract: Large language models (LLMs) are widely applied across chemical tasks, such as molecular property prediction, which underpins drug discovery.
arXiv:2610.02186v1 Announce Type: cross Abstract: Molecular learning models are strongly shaped by their underlying representations. Yet standard sequential and graph formalisms struggle to explicitl...
Local chemical perception and property reasoning are both essential for understanding how molecular structure determines properties. Current LLM-based chemical reasoning methods either receive SMILES/molecular images together with descriptions of local motifs, or reason directly from molecular images.
arXiv:2607. 01800v1 Announce Type: new Abstract: Large Language Models (LLMs) have recently shown promise in molecular discovery, yet a gap remains between their probabilistic nature over discrete sequential tokens and the rigid topological constraints of chemical space.
ReactBench is a benchmark designed to evaluate the structural reasoning abilities of multimodal large language models (MLLMs) using chemical reaction diagrams. The dataset contains 1,618 expert‑annotated question‑answer pairs that test reasoning across four hierarchical task dimensions, from simple endpoint counting to complex topological analysis. Evaluation of 24 MLLMs shows a performance gap of more than 30% between anchor‑based tasks and holistic structural reasoning tasks, indicating that current models struggle with reasoning over branching, converging, and cyclic structures.